apache-tomcat-7.0.35 installs empty folders in /opt/local/share/tomcat and nothing else #59
Comments
|
The package can't be removed as far as I can tell and it blocks the installation of the other apache-tomcat versions. |
|
This is fixed resolved (package was replaced with the typo fixed). To clean up the borked install, just 'rm -rf /opt/local/pkg/apache-tomcat-7.0.35' and re-install the package. |
|
Thank you @mamash :) |
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== 2.7.0 / 2013-08-03 Charlie Savage * Do not call Ruby code during a GC cycle (Dirkjan Bussink) * Fix thread error handling (Geoffrey Giesemann) * Set libxml error handler when a libxml-ruby error handler is set (Geoffrey Giesemann) * Fix tests for nil TypeErrors (Geoffrey Giesemann) * Fix segmentation fault for issue #62. The deregisternode function was incorrectly NULLing out a node's mark and free functions for nodes removed from a document tree (Charlie Savage) * Cleanup writer code (Charlie Savage) * Fix equality check of LibXML::XML::Error against other objects (Michał Szajbe) * Fix XML::Writer.set_quote_char UT, wrong expected string (#63). (julp) * Fix potential segfault when GC occurs while creating ns from xpath (Timothy Elliott) * Fix segmentation fault after failing to load external schema (#59). (Clifford Heath)
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Dec 9, 2013
Changelog:
0.8.7 2012-11-27
BUG FIXES
* Fix use of alternates in ``DiskObjectStore``.{__contains__,__iter__}.
(Dmitriy)
* Fix compatibility with Python 2.4. (David Carr)
0.8.6 2012-11-09
API CHANGES
* dulwich.__init__ no longer imports client, protocol, repo and
server modules. (Jelmer Vernooij)
FEATURES
* ConfigDict now behaves more like a dictionary.
(Adam 'Cezar' Jenkins, issue #58)
* HTTPGitApplication now takes an optional
`fallback_app` argument. (Jonas Haag, issue #67)
* Support for large pack index files. (Jameson Nash)
TESTING
* Make index entry tests a little bit less strict, to cope with
slightly different behaviour on various platforms.
(Jelmer Vernooij)
* ``setup.py test`` (available when setuptools is installed) now
runs all tests, not just the basic unit tests.
(Jelmer Vernooij)
BUG FIXES
* Commit._deserialize now actually deserializes the current state rather than
the previous one. (Yifan Zhang, issue #59)
* Handle None elements in lists of TreeChange objects. (Alex Holmes)
* Support cloning repositories without HEAD set.
(D-Key, Jelmer Vernooij, issue #69)
* Support ``MemoryRepo.get_config``. (Jelmer Vernooij)
* In ``get_transport_and_path``, pass extra keyword arguments on to
HttpGitClient. (Jelmer Vernooij)
0.8.5 2012-03-29
BUG FIXES
* Avoid use of 'with' in dulwich.index. (Jelmer Vernooij)
* Be a little bit strict about OS behaviour in index tests.
Should fix the tests on Debian GNU/kFreeBSD. (Jelmer Vernooij)
0.8.4 2012-03-28
BUG FIXES
* Options on the same line as sections in config files are now supported.
(Jelmer Vernooij, #920553)
* Only negotiate capabilities that are also supported by the server.
(Rod Cloutier, Risto Kankkunen)
* Fix parsing of invalid timezone offsets with two minus signs.
(Jason R. Coombs, #697828)
* Reset environment variables during tests, to avoid
test isolation leaks reading ~/.gitconfig. (Risto Kankkunen)
TESTS
* $HOME is now explicitly specified for tests that use it to read
``~/.gitconfig``, to prevent test isolation issues.
(Jelmer Vernooij, #920330)
FEATURES
* Additional arguments to get_transport_and_path are now passed
on to the constructor of the transport. (Sam Vilain)
* The WSGI server now transparently handles when a git client submits data
using Content-Encoding: gzip.
(David Blewett, Jelmer Vernooij)
* Add dulwich.index.build_index_from_tree(). (milki)
jperkin
pushed a commit
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Dec 9, 2013
== 2.7.0 / 2013-08-03 Charlie Savage * Do not call Ruby code during a GC cycle (Dirkjan Bussink) * Fix thread error handling (Geoffrey Giesemann) * Set libxml error handler when a libxml-ruby error handler is set (Geoffrey Giesemann) * Fix tests for nil TypeErrors (Geoffrey Giesemann) * Fix segmentation fault for issue #62. The deregisternode function was incorrectly NULLing out a node's mark and free functions for nodes removed from a document tree (Charlie Savage) * Cleanup writer code (Charlie Savage) * Fix equality check of LibXML::XML::Error against other objects (Michał Szajbe) * Fix XML::Writer.set_quote_char UT, wrong expected string (#63). (julp) * Fix potential segfault when GC occurs while creating ns from xpath (Timothy Elliott) * Fix segmentation fault after failing to load external schema (#59). (Clifford Heath)
jperkin
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Jan 6, 2014
Incompatible Changes: * can no longer use both `\' and `:' (didn't work anyway) New Features: * Handling of run-time errors (default: die) is now overridable by subclasses via signature_error_handler(). [github #54] * Can now have aliased named parameters. [github #57] * remove dependency on Devel::BeginLift [github #39] * can now use `when' to specify default conditions [github #48] * can use `//=' as a shortcut for `when undef' [github #45] * can now provide `where' constraints in addition to (or instead of) a type [github #7] * can now use `...' to disable further argument checking [github #49] * can now specify more than one alternative in type unions [github #55] * can now nest parameterized types Bug Fixes: * Removed experimental smartmatch warnings * Don't require Data::Alias for named params unless you have to [github #71] * Fixed obscure bug where an eval in Method::Signatures wouldn't be skipped when carp'ing (i.e. in carp_location_for()) [github #72] * Data::Alias is only loaded when needed avoiding a threads + eval bug in most cases and improving compile time performance. [rt.cpan.org 82922, github #62] * Compile-time errors now reporting proper line numbers. [github #61] * Trailing commas on parameter lists are now ok. [rt.cpan.org 81364] * Default condition of `when {}' now interpreted as `when { $_ ~~ {} }' (avoids parse error). [github #60] Optimizations: * better signature parsing using PPI [github #11] Distribution Fixes: * Fixed failing test in 5.10.0 (uncovered by CPAN Testers) * Fixed repo link in metadata (thanks dsteinbrunner) [github #87] * Add M::S::Parameter to MANIFEST [github #76] * Change representation of Infinity to work on Win32 [github #75] * Fixed stray detritus in MANIFEST. * Somehow my last-minute fix to the new error handler test didn't make it in; this will fix "Can't locate Moose.pm" errors. * Fixed test failing on 5.10.0 as per github #59. * Fixed subtests failing on Test::More's prior to 0.96. Docs: * Updated close parend problem to include quotes and a workaround [rt.cpan.org 85925] * Fixed some typos (thanks dsteinbrunner) [github #88] * Found and fixed missing parend * Minor clarifications here and there. * Clarified what doesn't work in Perl 5.8. * Added Function::Parameters to See Also section. * Updated copyright. * documented all new features * new ASCI-art breakdown of signature syntax * minor tweaks and corrections Misc: * Rearranged so signature is now an object [github #30] * Add hook for Travis CI [github #78] * Failure to parse parameters will now produce a more useful error.
jperkin
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Changelog:
0.8.7 2012-11-27
BUG FIXES
* Fix use of alternates in ``DiskObjectStore``.{__contains__,__iter__}.
(Dmitriy)
* Fix compatibility with Python 2.4. (David Carr)
0.8.6 2012-11-09
API CHANGES
* dulwich.__init__ no longer imports client, protocol, repo and
server modules. (Jelmer Vernooij)
FEATURES
* ConfigDict now behaves more like a dictionary.
(Adam 'Cezar' Jenkins, issue #58)
* HTTPGitApplication now takes an optional
`fallback_app` argument. (Jonas Haag, issue #67)
* Support for large pack index files. (Jameson Nash)
TESTING
* Make index entry tests a little bit less strict, to cope with
slightly different behaviour on various platforms.
(Jelmer Vernooij)
* ``setup.py test`` (available when setuptools is installed) now
runs all tests, not just the basic unit tests.
(Jelmer Vernooij)
BUG FIXES
* Commit._deserialize now actually deserializes the current state rather than
the previous one. (Yifan Zhang, issue #59)
* Handle None elements in lists of TreeChange objects. (Alex Holmes)
* Support cloning repositories without HEAD set.
(D-Key, Jelmer Vernooij, issue #69)
* Support ``MemoryRepo.get_config``. (Jelmer Vernooij)
* In ``get_transport_and_path``, pass extra keyword arguments on to
HttpGitClient. (Jelmer Vernooij)
0.8.5 2012-03-29
BUG FIXES
* Avoid use of 'with' in dulwich.index. (Jelmer Vernooij)
* Be a little bit strict about OS behaviour in index tests.
Should fix the tests on Debian GNU/kFreeBSD. (Jelmer Vernooij)
0.8.4 2012-03-28
BUG FIXES
* Options on the same line as sections in config files are now supported.
(Jelmer Vernooij, #920553)
* Only negotiate capabilities that are also supported by the server.
(Rod Cloutier, Risto Kankkunen)
* Fix parsing of invalid timezone offsets with two minus signs.
(Jason R. Coombs, #697828)
* Reset environment variables during tests, to avoid
test isolation leaks reading ~/.gitconfig. (Risto Kankkunen)
TESTS
* $HOME is now explicitly specified for tests that use it to read
``~/.gitconfig``, to prevent test isolation issues.
(Jelmer Vernooij, #920330)
FEATURES
* Additional arguments to get_transport_and_path are now passed
on to the constructor of the transport. (Sam Vilain)
* The WSGI server now transparently handles when a git client submits data
using Content-Encoding: gzip.
(David Blewett, Jelmer Vernooij)
* Add dulwich.index.build_index_from_tree(). (milki)
jperkin
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Jan 21, 2014
== 2.7.0 / 2013-08-03 Charlie Savage * Do not call Ruby code during a GC cycle (Dirkjan Bussink) * Fix thread error handling (Geoffrey Giesemann) * Set libxml error handler when a libxml-ruby error handler is set (Geoffrey Giesemann) * Fix tests for nil TypeErrors (Geoffrey Giesemann) * Fix segmentation fault for issue #62. The deregisternode function was incorrectly NULLing out a node's mark and free functions for nodes removed from a document tree (Charlie Savage) * Cleanup writer code (Charlie Savage) * Fix equality check of LibXML::XML::Error against other objects (Michał Szajbe) * Fix XML::Writer.set_quote_char UT, wrong expected string (#63). (julp) * Fix potential segfault when GC occurs while creating ns from xpath (Timothy Elliott) * Fix segmentation fault after failing to load external schema (#59). (Clifford Heath)
jperkin
pushed a commit
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this issue
Jan 21, 2014
Incompatible Changes: * can no longer use both `\' and `:' (didn't work anyway) New Features: * Handling of run-time errors (default: die) is now overridable by subclasses via signature_error_handler(). [github #54] * Can now have aliased named parameters. [github #57] * remove dependency on Devel::BeginLift [github #39] * can now use `when' to specify default conditions [github #48] * can use `//=' as a shortcut for `when undef' [github #45] * can now provide `where' constraints in addition to (or instead of) a type [github #7] * can now use `...' to disable further argument checking [github #49] * can now specify more than one alternative in type unions [github #55] * can now nest parameterized types Bug Fixes: * Removed experimental smartmatch warnings * Don't require Data::Alias for named params unless you have to [github #71] * Fixed obscure bug where an eval in Method::Signatures wouldn't be skipped when carp'ing (i.e. in carp_location_for()) [github #72] * Data::Alias is only loaded when needed avoiding a threads + eval bug in most cases and improving compile time performance. [rt.cpan.org 82922, github #62] * Compile-time errors now reporting proper line numbers. [github #61] * Trailing commas on parameter lists are now ok. [rt.cpan.org 81364] * Default condition of `when {}' now interpreted as `when { $_ ~~ {} }' (avoids parse error). [github #60] Optimizations: * better signature parsing using PPI [github #11] Distribution Fixes: * Fixed failing test in 5.10.0 (uncovered by CPAN Testers) * Fixed repo link in metadata (thanks dsteinbrunner) [github #87] * Add M::S::Parameter to MANIFEST [github #76] * Change representation of Infinity to work on Win32 [github #75] * Fixed stray detritus in MANIFEST. * Somehow my last-minute fix to the new error handler test didn't make it in; this will fix "Can't locate Moose.pm" errors. * Fixed test failing on 5.10.0 as per github #59. * Fixed subtests failing on Test::More's prior to 0.96. Docs: * Updated close parend problem to include quotes and a workaround [rt.cpan.org 85925] * Fixed some typos (thanks dsteinbrunner) [github #88] * Found and fixed missing parend * Minor clarifications here and there. * Clarified what doesn't work in Perl 5.8. * Added Function::Parameters to See Also section. * Updated copyright. * documented all new features * new ASCI-art breakdown of signature syntax * minor tweaks and corrections Misc: * Rearranged so signature is now an object [github #30] * Add hook for Travis CI [github #78] * Failure to parse parameters will now produce a more useful error.
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FITS (Flexible Image Transport System) is a data format most used in astronomy.
PyFITS is a Python module for reading, writing, and manipulating FITS files.
The module uses Python's object-oriented features to provide quick, easy, and
efficient access to FITS files. The use of Python's array syntax enables
immediate access to any FITS extension, header cards, or data items.
Changes to 2.4.0 (in py-pyfits):
Changelog
===========
3.2 (2013-11-26)
----------------
Highlights
^^^^^^^^^^
- Rewrote CFITSIO-based backend for handling tile compression of FITS files.
It now uses a standard CFITSIO instead of heavily modified pieces of CFITSIO
as before. PyFITS ships with its own copy of CFITSIO v3.35 which supports
the latest version of the Tiled Image Convention (v2.3), but system
packagers may choose instead to strip this out in favor of a
system-installed version of CFITSIO. Earlier versions may work, but nothing
earlier than 3.28 has been tested yet. (#169)
- Added support for reading and writing tables using the Q format for columns.
The Q format is identical to the P format (variable-length arrays) except
that it uses 64-bit integers for the data descriptors, allowing more than
4 GB of variable-length array data in a single table. (#160)
- Added initial support for table columns containing pseudo-unsigned integers.
This is currently enabled by using the ``uint=True`` option when opening
files; any table columns with the correct BZERO value will be interpreted
and returned as arrays of unsigned integers.
- Some refactoring of the table and ``FITS_rec`` modules in order to better
separate the details of the FITS binary and ASCII table data structures from
the HDU data structures that encapsulate them. Most of these changes should
not be apparent to users (but see API Changes below).
API Changes
^^^^^^^^^^^
- Assigning to values in ``ColDefs.names``, ``ColDefs.formats``,
``ColDefs.nulls`` and other attributes of ``ColDefs`` instances that return
lists of column properties is no longer supported. Assigning to those lists
will no longer update the corresponding columns. Instead, please just
modify the ``Column`` instances directly (``Column.name``, ``Column.null``,
etc.)
- The ``pyfits.new_table`` function is marked "pending deprecation". This
does not mean it will be removed outright or that its functionality has
changed. It will likely be replaced in the future for a function with
similar, if not subtly different functionality. A better, if not slightly
more verbose approach is to use ``pyfits.FITS_rec.from_columns`` to create
a new ``FITS_rec`` table--this has the same interface as
``pyfits.new_table``. The difference is that it returns a plan ``FITS_rec``
array, and not an HDU instance. This ``FITS_rec`` object can then be used
as the data argument in the constructors for ``BinTableHDU`` (for binary
tables) or ``TableHDU`` (for ASCII tables). This is analogous to creating
an ``ImageHDU`` by passing in an image array.
``pyfits.FITS_rec.from_columns`` is just a simpler way of creating a
FITS-compatible recarray from a FITS column specification.
- The ``updateHeader``, ``updateHeaderData``, and ``updateCompressedData``
methods of the ``CompDataHDU`` class are pending deprecation and moved to
internal methods. The operation of these methods depended too much on
internal state to be used safely by users; instead they are invoked
automatically in the appropriate places when reading/writing compressed image
HDUs.
- The ``CompDataHDU.compData`` attribute is pending deprecation in favor of
the clearer and more PEP-8 compatible ``CompDataHDU.compressed_data``.
- The constructor for ``CompDataHDU`` has been changed to accept new keyword
arguments. The new keyword arguments are essentially the same, but are in
underscore_separated format rather than camelCase format. The old arguments
are still pending deprecation.
- The internal attributes of HDU classes ``_hdrLoc``, ``_datLoc``, and
``_datSpan`` have been replaced with ``_header_offset``, ``_data_offset``,
and ``_data_size`` respectively. The old attribute names are still pending
deprecation. This should only be of interest to advanced users who have
created their own HDU subclasses.
- The following previously deprecated functions and methods have been removed
entirely: ``createCard``, ``createCardFromString``, ``upperKey``,
``ColDefs.data``, ``setExtensionNameCaseSensitive``, ``_File.getfile``,
``_TableBaseHDU.get_coldefs``, ``Header.has_key``, ``Header.ascardlist``.
If you run your code with a previous version of PyFITS (>= 3.0, < 3.2) with
the ``python -Wd`` argument, warnings for all deprecated interfaces still in
use will be displayed.
- Interfaces that were pending deprecation are now fully deprecated. These
include: ``create_card``, ``create_card_from_string``, ``upper_key``,
``Header.get_history``, and ``Header.get_comment``.
- The ``.name`` attribute on HDUs is now directly tied to the HDU's header, so
that if ``.header['EXTNAME']`` changes so does ``.name`` and vice-versa.
- The ``pyfits.file.PYTHON_MODES`` constant dict was renamed to
``pyfits.file.PYFITS_MODES`` which better reflects its purpose. This is
rarely used by client code, however. Support for the old name will be
removed by PyFITS 3.4.
Other Changes and Additions
^^^^^^^^^^^^^^^^^^^^^^^^^^^
- The new compression code also adds support for the ZQUANTIZ and ZDITHER0
keywords added in more recent versions of this FITS Tile Compression spec.
This includes support for lossless compression with GZIP. (#198) By default
no dithering is used, but the ``SUBTRACTIVE_DITHER_1`` and
``SUBTRACTIVE_DITHER_2`` methods can be enabled by passing the correct
constants to the ``quantize_method`` argument to the ``CompImageHDU``
constuctor. A seed can be manually specified, or automatically generated
using either the system clock or checksum-based methods via the
``dither_seed`` argument. See the documentation for ``CompImageHDU`` for
more details. (#198) (spacetelescope/PYFITS#32)
- Images compressed with the Tile Compression standard can now be larger than
4 GB through support of the Q format. (#159)
- All HDUs now have a ``.ver`` ``.level`` attribute that returns the value of
the EXTVAL and EXTLEVEL keywords from that HDU's header, if the exist. This
was added for consistency with the ``.name`` attribute which returns the
EXTNAME value from the header.
- Then ``Column`` and ``ColDefs`` classes have new ``.dtype`` attributes
which give the Numpy dtype for the column data in the first case, and the
full Numpy compound dtype for each table row in the latter case.
- There was an issue where new tables created defaulted the values in all
string columns to '0.0'. Now string columns are filled with empty strings
by default--this seems a less surprising default, but it may cause
differences with tables created with older versions of PyFITS.
- Improved round-tripping and preservation of manually assigned column
attributes (``TNULLn``, ``TSCALn``, etc.) in table HDU headers.
(astropy/astropy#996)
Bug Fixes
^^^^^^^^^
- Binary tables containing compressed images may, optionally, contain other
columns unrelated to the tile compression convention. Although this is an
uncommon use case, it is permitted by the standard. (#159)
- Reworked some of the file I/O routines to allow simpler, more consistent
mapping between OS-level file modes ('rb', 'wb', 'ab', etc.) and the more
"PyFITS-specific" modes used by PyFITS like "readonly" and "update".
That is, if reading a FITS file from an open file object, it doesn't matter
as much what "mode" it was opened in so long as it has the right
capabilities (read/write/etc.) Also works around bugs in the Python io
module in 2.6+ with regard to file modes. (spacetelescope/PyFITS#33)
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (astropy/astropy#968)
3.1.3 (2013-11-26)
------------------
- Disallowed assigning NaN and Inf floating point values as header values,
since the FITS standard does not define a way to represent them in. Because
this is undefined, the previous behavior did not make sense and produced
invalid FITS files. (spacetelescope/PyFITS#11)
- Added a workaround for a bug in 64-bit OSX that could cause truncation when
writing files greater than 2^32 bytes in size. (spacetelescope/PyFITS#28)
- Fixed a long-standing issue where writing binary tables did not correctly
write the TFORMn keywords for variable-length array columns (they ommitted
the max array length parameter of the format). This was thought fixed in
v3.1.2, but it was only fixed there for compressed image HDUs and not for
binary tables in general.
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (Backported from 3.2)
3.0.12 (2013-11-26)
-------------------
- Disallowed assigning NaN and Inf floating point values as header values,
since the FITS standard does not define a way to represent them in. Because
this is undefined, the previous behavior did not make sense and produced
invalid FITS files. (Backported from 3.1.3)
- Added a workaround for a bug in 64-bit OSX that could cause truncation when
writing files greater than 2^32 bytes in size. (Backported from 3.1.3)
- Fixed a long-standing issue where writing binary tables did not correctly
write the TFORMn keywords for variable-length array columns (they ommitted
the max array length parameter of the format). This was thought fixed in
v3.1.2, but it was only fixed there for compressed image HDUs and not for
binary tables in general. (Backported from 3.1.3)
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (Backported from 3.2)
3.1.2 (2013-04-22)
------------------
- When an error occurs opening a file in fitsdiff the exception message will
now at least mention which file had the error. (#168)
- Fixed support for opening gzipped FITS files by filename in a writeable mode
(PyFITS has supported writing to gzip files for some time now, but only
enabled it when GzipFile objects were passed to ``pyfits.open()`` due to
some legacy code preventing full gzip support. (#195)
- Added a more helpful error message in the case of malformatted FITS files
that contain non-float NULL values in an ASCII table but are missing the
required TNULLn keywords in the header. (#197)
- Fixed an (apparently long-standing) issue where writing compressed images
did not correctly write the TFORMn keywords for variable-length array
columns (they ommitted the max array length parameter of the format). (#199)
- Slightly refactored how tables containing variable-length array columns are
handled to add two improvements: Fixes an issue where accessing the data
after a call to the `pyfits.getdata` convenience function caused an
exception, and allows the VLA data to be read from an existing mmap of the
FITS file. (#200)
- Fixed a bug that could occur when opening a table containing
multi-dimensional columns (i.e. via the TDIMn keyword) and then writing it
out to a new file. (#201)
- Added use of the console_scripts entry point to install the fitsdiff and
fitscheck scripts, which if nothing else provides better Windows support.
The generated scripts now override the ones explicitly defined in the
scripts/ directory (which were just trivial stubs to begin with). (#202)
- Fixed a bug on Python 3 where attempting to open a non-existent file on
Python 3 caused a seemingly unrelated traceback. (#203)
- Fixed a bug in fitsdiff that reported two header keywords containing NaN
as value as different. (#204)
- Fixed an issue in the tests that caused some tests to fail if pyfits is
installed with read-only permissions. (#208)
- Fixed a bug where instantiating a ``BinTableHDU`` from a numpy array
containing boolean fields converted all the values to ``False``. (#215)
- Fixed an issue where passing an array of integers into the constructor of
``Column()`` when the column type is floats of the same byte width caused the
column array to become garbled. (#218)
- Fixed inconsistent behavior in creating CONTINUE cards from byte strings
versus unicode strings in Python 2--CONTINUE cards can now be created
properly from unicode strings (so long as they are convertable to ASCII).
(spacetelescope/PyFITS#1)
- Fixed a couple cases where creating a new table using TDIMn in some of the
columns could caused a crash. (spacetelescope/PyFITS#3)
- Fixed a bug in parsing HIERARCH keywords that do not have a space after
the first equals sign (before the value). (spacetelescope/PyFITS#5)
- Prevented extra leading whitespace on HIERARCH keywords from being treated
as part of the keyword. (spacetelescope/PyFITS#6)
- Fixed a bug where HIERARCH keywords containing lower-case letters was
mistakenly marked as invalid during header validation.
(spacetelescope/PyFITS#7)
- Fixed an issue that was ancillary to (spacetelescope/PyFITS#7) where the
``Header.index()`` method did not work correctly with HIERARCH keywords
containing lower-case letters.
3.0.11 (2013-04-17)
-------------------
- Fixed support for opening gzipped FITS files by filename in a writeable mode
(PyFITS has supported writing to gzip files for some time now, but only
enabled it when GzipFile objects were passed to ``pyfits.open()`` due to
some legacy code preventing full gzip support. Backported from 3.1.2. (#195)
- Added a more helpful error message in the case of malformatted FITS files
that contain non-float NULL values in an ASCII table but are missing the
required TNULLn keywords in the header. Backported from 3.1.2. (#197)
- Fixed an (apparently long-standing) issue where writing compressed images did
not correctly write the TFORMn keywords for variable-length array columns
(they ommitted the max array length parameter of the format). Backported from
3.1.2. (#199)
- Slightly refactored how tables containing variable-length array columns are
handled to add two improvements: Fixes an issue where accessing the data
after a call to the `pyfits.getdata` convenience function caused an
exception, and allows the VLA data to be read from an existing mmap of the
FITS file. Backported from 3.1.2. (#200)
- Fixed a bug that could occur when opening a table containing
multi-dimensional columns (i.e. via the TDIMn keyword) and then writing it
out to a new file. Backported from 3.1.2. (#201)
- Fixed a bug on Python 3 where attempting to open a non-existent file on
Python 3 caused a seemingly unrelated traceback. Backported from 3.1.2.
(#203)
- Fixed a bug in fitsdiff that reported two header keywords containing NaN
as value as different. Backported from 3.1.2. (#204)
- Fixed an issue in the tests that caused some tests to fail if pyfits is
installed with read-only permissions. Backported from 3.1.2. (#208)
- Fixed a bug where instantiating a ``BinTableHDU`` from a numpy array
containing boolean fields converted all the values to ``False``. Backported
from 3.1.2. (#215)
- Fixed an issue where passing an array of integers into the constructor of
``Column()`` when the column type is floats of the same byte width caused the
column array to become garbled. Backported from 3.1.2. (#218)
- Fixed a couple cases where creating a new table using TDIMn in some of the
columns could caused a crash. Backported from 3.1.2.
(spacetelescope/PyFITS#3)
3.1.1 (2013-01-02)
------------------
This is a bug fix release for the 3.1.x series.
Bug Fixes
^^^^^^^^^
- Improved handling of scaled images and pseudo-unsigned integer images in
compressed image HDUs. They now work more transparently like normal image
HDUs with support for the ``do_not_scale_image_data`` and ``uint`` options,
as well as ``scale_back`` and ``save_backup``. The ``.scale()`` method
works better too. (#88)
- Permits non-string values for the EXTNAME keyword when reading in a file,
rather than throwing an exception due to the malformatting. Added
verification for the format of the EXTNAME keyword when writing. (#96)
- Added support for EXTNAME and EXTVER in PRIMARY HDUs. That is, if EXTNAME
is specified in the header, it will also be reflected in the ``.name``
attribute and in ``pyfits.info()``. These keywords used to be verboten in
PRIMARY HDUs, but the latest version of the FITS standard allows them.
(#151)
- HCOMPRESS can again be used to compress data cubes (and higher-dimensional
arrays) so long as the tile size is effectively 2-dimensional. In fact,
PyFITS will automatically use compatible tile sizes even if they're not
explicitly specified. (#171)
- Added support for the optional ``endcard`` parameter in the
``Header.fromtextfile()`` and ``Header.totextfile()`` methods. Although
``endcard=False`` was a reasonable default assumption, there are still text
dumps of FITS headers that include the END card, so this should have been
more flexible. (#176)
- Fixed a crash when running fitsdiff on two empty (that is, zero row) tables.
(#178)
- Fixed an issue where opening files containing random groups HDUs in update
mode could cause an unnecessary rewrite of the file even if none of the
data is modified. (#179)
- Fixed a bug that could caused a deadlock in the filesystem on OSX if PyFITS
is used with Numpy 1.7 in some cases. (#180)
- Fixed a crash when generating diff reports from diffs using the
``ignore_comments`` options. (#181)
- Fixed some bugs with WCS Paper IV record-valued keyword cards:
- Cards that looked kind of like RVKCs but were not intended to be were
over-permissively treated as such--commentary keywords like COMMENT and
HISTORY were particularly affected. (#183)
- Looking up a card in a header by its standard FITS keyword only should
always return the raw value of that card. That way cards containing
values that happen to valid RVKCs but were not intended to be will still
be treated like normal cards. (#184)
- Looking up a RVKC in a header with only part of the field-specifier (for
example "DP1.AXIS" instead of "DP1.AXIS.1") was implicitly treated as a
wildcard lookup. (#184)
- Fixed a crash when diffing two FITS files where at least one contains a
compressed image HDU which was not recognized as an image instead of a
table. (#187)
- Fixed bugs in the backwards compatibility layer for the ``CardList.index``
and ``CardList.count`` methods. (#190)
- Improved ``__repr__`` and text file representation of cards with long values
that are split into CONTINUE cards. (#193)
- Fixed a crash when trying to assign a long (> 72 character) value to blank
('') keywords. This also changed how blank keywords are represented--there
are still exactly 8 spaces before any commentary content can begin; this
*may* affect the exact display of header cards that assumed there could be
fewer spaces in a blank keyword card before the content begins. However, the
current approach is more in line with the requirements of the FITS standard.
(#194)
3.0.10 (2013-01-02)
-------------------
- Improved handling of scaled images and pseudo-unsigned integer images in
compressed image HDUs. They now work more transparently like normal image
HDUs with support for the ``do_not_scale_image_data`` and ``uint`` options,
as well as ``scale_back`` and ``save_backup``. The ``.scale()`` method
works better too. Backported from 3.1.1. (#88)
- Permits non-string values for the EXTNAME keyword when reading in a file,
rather than throwing an exception due to the malformatting. Added
verification for the format of the EXTNAME keyword when writing. Backported
from 3.1.1. (#96)
- Added support for EXTNAME and EXTVER in PRIMARY HDUs. That is, if EXTNAME
is specified in the header, it will also be reflected in the ``.name``
attribute and in ``pyfits.info()``. These keywords used to be verbotten in
PRIMARY HDUs, but the latest version of the FITS standard allows them.
Backported from 3.1.1. (#151)
- HCOMPRESS can again be used to compress data cubes (and higher-dimensional
arrays) so long as the tile size is effectively 2-dimensional. In fact,
PyFITS will not automatically use compatible tile sizes even if they're not
explicitly specified. Backported from 3.1.1. (#171)
- Fixed a bug when writing out files containing zero-width table columns,
where the TFIELDS keyword would be updated incorrectly, leaving the table
largely unreadable. Backported from 3.1.0. (#174)
- Fixed an issue where opening files containing random groups HDUs in update
mode could cause an unnecessary rewrite of the file even if none of the
data is modified. Backported from 3.1.1. (#179)
- Fixed a bug that could caused a deadlock in the filesystem on OSX if PyFITS
is used with Numpy 1.7 in some cases. Backported from 3.1.1. (#180)
3.1 (2012-08-08)
----------------
Highlights
^^^^^^^^^^
- The ``Header`` object has been significantly reworked, and ``CardList``
objects are now deprecated (their functionality folded into the ``Header``
class). See API Changes below for more details.
- Memory maps are now used by default to access HDU data. See API Changes
below for more details.
- Now includes a new version of the ``fitsdiff`` program for comparing two
FITS files, and a new FITS comparison API used by ``fitsdiff``. See New
Features below.
API Changes
^^^^^^^^^^^
- The ``Header`` class has been rewritten, and the ``CardList`` class is
deprecated. Most of the basic details of working with FITS headers are
unchanged, and will not be noticed by most users. But there are differences
in some areas that will be of interest to advanced users, and to application
developers. For full details of the changes, see the "Header Interface
Transition Guide" section in the PyFITS documentation. See ticket #64 on
the PyFITS Trac for futher details and background. Some highlights are
listed below:
* The Header class now fully implements the Python dict interface, and can
be used interchangably with a dict, where the keys are header keywords.
* New keywords can be added to the header using normal keyword assignment
(previously it was necessary to use ``Header.update`` to add new
keywords). For example::
>>> header['NAXIS'] = 2
will update the existing 'FOO' keyword if it already exists, or add a new
one if it doesn't exist, just like a dict.
* It is possible to assign both a value and a comment at the same time using
a tuple::
>>> header['NAXIS'] = (2, 'Number of axes')
* To add/update a new card and ensure it's added in a specific location, use
``Header.set()``::
>>> header.set('NAXIS', 2, 'Number of axes', after='BITPIX')
This works the same as the old ``Header.update()``. ``Header.update()``
still works in the old way too, but is deprecated.
* Although ``Card`` objects still exist, it generally is not necessary to
work with them directly. ``Header.ascardlist()``/``Header.ascard`` are
deprecated and should not be used. To directly access the ``Card``
objects in a header, use ``Header.cards``.
* To access card comments, it is still possible to either go through the
card itself, or through ``Header.comments``. For example::
>>> header.cards['NAXIS'].comment
Number of axes
>>> header.comments['NAXIS']
Number of axes
* ``Card`` objects can now be used interchangeably with
``(keyword, value, comment)`` 3-tuples. They still have ``.value`` and
``.comment`` attributes as well. The ``.key`` attribute has been renamed
to ``.keyword`` for consistency, though ``.key`` is still supported (but
deprecated).
- Memory mapping is now used by default to access HDU data. That is,
``pyfits.open()`` uses ``memmap=True`` as the default. This provides better
performance in the majority of use cases--there are only some I/O intensive
applications where it might not be desirable. Enabling mmap by default also
enabled finding and fixing a large number of bugs in PyFITS' handling of
memory-mapped data (most of these bug fixes were backported to PyFITS
3.0.5). (#85)
* A new ``pyfits.USE_MEMMAP`` global variable was added. Set
``pyfits.USE_MEMMAP = False`` to change the default memmap setting for
opening files. This is especially useful for controlling the behavior in
applications where pyfits is deeply embedded.
* Likewise, a new ``PYFITS_USE_MEMMAP`` environment variable is supported.
Set ``PYFITS_USE_MEMMAP = 0`` in your environment to change the default
behavior.
- The ``size()`` method on HDU objects is now a ``.size`` property--this
returns the size in bytes of the data portion of the HDU, and in most cases
is equivalent to ``hdu.data.nbytes`` (#83)
- ``BinTableHDU.tdump`` and ``BinTableHDU.tcreate`` are deprecated--use
``BinTableHDU.dump`` and ``BinTableHDU.load`` instead. The new methods
output the table data in a slightly different format from previous versions,
which places quotes around each value. This format is compatible with data
dumps from previous versions of PyFITS, but not vice-versa due to a parsing
bug in older versions.
- Likewise the ``pyfits.tdump`` and ``pyfits.tcreate`` convenience function
versions of these methods have been renamed ``pyfits.tabledump`` and
``pyfits.tableload``. The old deprecated, but currently retained for
backwards compatibility. (r1125)
- A new global variable ``pyfits.EXTENSION_NAME_CASE_SENSITIVE`` was added.
This serves as a replacement for ``pyfits.setExtensionNameCaseSensitive``
which is not deprecated and may be removed in a future version. To enable
case-sensitivity of extension names (i.e. treat 'sci' as distict from 'SCI')
set ``pyfits.EXTENSION_NAME_CASE_SENSITIVE = True``. The default is
``False``. (r1139)
- A new global configuration variable ``pyfits.STRIP_HEADER_WHITESPACE`` was
added. By default, if a string value in a header contains trailing
whitespace, that whitespace is automatically removed when the value is read.
Now if you set ``pyfits.STRIP_HEADER_WHITESPACE = False`` all whitespace is
preserved. (#146)
- The old ``classExtensions`` extension mechanism (which was deprecated in
PyFITS 3.0) is removed outright. To our knowledge it was no longer used
anywhere. (r1309)
- Warning messages from PyFITS issued through the Python warnings API are now
output to stderr instead of stdout, as is the default. PyFITS no longer
modifies the default behavior of the warnings module with respect to which
stream it outputs to. (r1319)
- The ``checksum`` argument to ``pyfits.open()`` now accepts a value of
'remove', which causes any existing CHECKSUM/DATASUM keywords to be ignored,
and removed when the file is saved.
New Features
^^^^^^^^^^^^
- Added support for the proposed "FITS" extension HDU type. See
http://listmgr.cv.nrao.edu/pipermail/fitsbits/2002-April/001094.html. FITS
HDUs contain an entire FITS file embedded in their data section. `FitsHDU`
objects work like other HDU types in PyFITS. Their ``.data`` attribute
returns the raw data array. However, they have a special ``.hdulist``
attribute which processes the data as a FITS file and returns it as an
in-memory HDUList object. FitsHDU objects also support a
``FitsHDU.fromhdulist()`` classmethod which returns a new `FitsHDU` object
that embeds the supplied HDUList. (#80)
- Added a new ``.is_image`` attribute on HDU objects, which is True if the HDU
data is an 'image' as opposed to a table or something else. Here the
meaning of 'image' is fairly loose, and mostly just means a Primary or Image
extension HDU, or possibly a compressed image HDU (#71)
- Added an ``HDUList.fromstring`` classmethod which can parse a FITS file
already in memory and instantiate and ``HDUList`` object from it. This
could be useful for integrating PyFITS with other libraries that work on
FITS file, such as CFITSIO. It may also be useful in streaming
applications. The name is a slight misnomer, in that it actually accepts
any Python object that implements the buffer interface, which includes
``bytes``, ``bytearray``, ``memoryview``, ``numpy.ndarray``, etc. (#90)
- Added a new ``pyfits.diff`` module which contains facilities for comparing
FITS files. One can use the ``pyfits.diff.FITSDiff`` class to compare two
FITS files in their entirety. There is also a ``pyfits.diff.HeaderDiff``
class for just comparing two FITS headers, and other similar interfaces.
See the PyFITS Documentation for more details on this interface. The
``pyfits.diff`` module powers the new ``fitsdiff`` program installed with
PyFITS. After installing PyFITS, run ``fitsdiff --help`` for usage details.
- ``pyfits.open()`` now accepts a ``scale_back`` argument. If set to
``True``, this automatically scales the data using the original BZERO and
BSCALE parameters the file had when it was first opened, if any, as well as
the original BITPIX. For example, if the original BITPIX were 16, this
would be equivalent to calling ``hdu.scale('int16', 'old')`` just before
calling ``flush()`` or ``close()`` on the file. This option applies to all
HDUs in the file. (#120)
- ``pyfits.open()`` now accepts a ``save_backup`` argument. If set to
``True``, this automatically saves a backup of the original file before
flushing any changes to it (this of course only applies to update and append
mode). This may be especially useful when working with scaled image data.
(#121)
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Warnings from PyFITS are not output to stderr by default, instead of stdout
as it has been for some time. This is contrary to most users' expectations
and makes it more difficult for them to separate output from PyFITS from the
desired output for their scripts. (r1319)
Bug Fixes
^^^^^^^^^
- Fixed ``pyfits.tcreate()`` (now ``pyfits.tableload()``) to be more robust
when encountering blank lines in a column definition file (#14)
- Fixed a fairly rare crash that could occur in the handling of CONTINUE cards
when using Numpy 1.4 or lower (though 1.4 is the oldest version supported by
PyFITS). (r1330)
- Fixed ``_BaseHDU.fromstring`` to actually correctly instantiate an HDU
object from a string/buffer containing the header and data of that HDU.
This allowed for the implementation of ``HDUList.fromstring`` described
above. (#90)
- Fixed a rare corner case where, in some use cases, (mildly, recoverably)
malformatted float values in headers were not properly returned as floats.
(#137)
- Fixed a corollary to the previous bug where float values with a leading zero
before the decimal point had the leading zero unnecessarily removed when
saving changes to the file (eg. "0.001" would be written back as ".001" even
if no changes were otherwise made to the file). (#137)
- When opening a file containing CHECKSUM and/or DATASUM keywords in update
mode, the CHECKSUM/DATASUM are updated and preserved even if the file was
opened with checksum=False. This change in behavior prevents checksums from
being unintentionally removed. (#148)
- Fixed a bug where ``ImageHDU.scale(option='old')`` wasn't working at all--it
was not restoring the image to its original BSCALE and BZERO values. (#162)
- Fixed a bug when writing out files containing zero-width table columns,
where the TFIELDS keyword would be updated incorrectly, leaving the table
largely unreadable. This fix will be backported to the 3.0.x series in
version 3.0.10. (#174)
3.0.9 (2012-08-06)
------------------
This is a bug fix release for the 3.0.x series.
Bug Fixes
^^^^^^^^^
- Fixed ``Header.values()``/``Header.itervalues()`` and ``Header.items()``/
``Header.iteritems()`` to correctly return the different values for
duplicate keywords (particularly commentary keywords like HISTORY and
COMMENT). This makes the old Header implementation slightly more compatible
with the new implementation in PyFITS 3.1. (#127)
.. note::
This fix did not change the existing behavior from earlier PyFITS
versions where ``Header.keys()`` returns all keywords in the header with
duplicates removed. PyFITS 3.1 changes that behavior, so that
``Header.keys()`` includes duplicates.
- Fixed a bug where ``ImageHDU.scale(option='old')`` wasn't working at all--it
was not restoring the image to its original BSCALE and BZERO values. (#162)
- Fixed a bug where opening a file containing compressed image HDUs in
'update' mode and then immediately closing it without making any changes
caused the file to be rewritten unncessarily. (#167)
- Fixed two memory leaks that could occur when writing compressed image data,
or in some cases when opening files containing compressed image HDUs in
'update' mode. (#168)
3.0.8 (2012-06-04)
------------------
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Prior to this release, image data sections did not work with scaled
data--that is, images with non-trivial BSCALE and/or BZERO values.
Previously, in order to read such images in sections, it was necessary to
manually apply the BSCALE+BZERO to each section. It's worth noting that
sections *did* support pseudo-unsigned ints (flakily). This change just
extends that support for general BSCALE+BZERO values.
Bug Fixes
^^^^^^^^^
- Fixed a bug that prevented updates to values in boolean table columns from
being saved. This turned out to be a symptom of a deeper problem that could
prevent other table updates from being saved as well. (#139)
- Fixed a corner case in which a keyword comment ending with the string "END"
could, in some circumstances, cause headers (and the rest of the file after
that point) to be misread. (#142)
- Fixed support for scaled image data and psuedo-unsigned ints in image data
sections (``hdu.section``). Previously this was not supported at all. At
some point support was supposedly added, but it was buggy and incomplete.
Now the feature seems to work much better. (#143)
- Fixed the documentation to point out that image data sections *do* support
non-contiguous slices (and have for a long time). The documentation was
never updated to reflect this, and misinformed users that only contiguous
slices were supported, leading to some confusion. (#144)
- Fixed a bug where creating an ``HDUList`` object containing multiple PRIMARY
HDUs caused an infinite recursion when validating the object prior to
writing to a file. (#145)
- Fixed a rare but serious case where saving an update to a file that
previously had a CHECKSUM and/or DATASUM keyword, but removed the checksum
in saving, could cause the file to be slightly corrupted and unreadable.
(#147)
- Fixed problems with reading "non-standard" FITS files with primary headers
containing SIMPLE = F. PyFITS has never made many guarantees as to how such
files are handled. But it should at least be possible to read their
headers, and the data if possible. Saving changes to such a file should not
try to prepend an unwanted valid PRIMARY HDU. (#157)
- Fixed a bug where opening an image with ``disable_image_compression = True``
caused compression to be disabled for all subsequent ``pyfits.open()`` calls.
(r1651)
3.0.7 (2012-04-10)
------------------
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Slices of GroupData objects now return new GroupData objects instead of
extended multi-row _Group objects. This is analogous to how PyFITS 3.0 fixed
FITS_rec slicing, and should have been fixed for GroupData at the same time.
The old behavior caused bugs where functions internal to Numpy expected that
slicing an ndarray would return a new ndarray. As this is a rare usecase
with a rare feature most users are unlikely to be affected by this change.
- The previously internal _Group object for representing individual group
records in a GroupData object are renamed Group and are now a public
interface. However, there's almost no good reason to create Group objects
directly, so it shouldn't be considered a "new feature".
- An annoyance from PyFITS 3.0.6 was fixed, where the value of the EXTEND
keyword was always being set to F if there are not actually any extension
HDUs. It was unnecessary to modify this value.
Bug Fixes
^^^^^^^^^
- Fixed GroupData objects to return new GroupData objects when sliced instead
of _Group record objects. See "Changes in behavior" above for more details.
- Fixed slicing of Group objects--previously it was not possible to slice
slice them at all.
- Made it possible to assign `np.bool_` objects as header values. (#123)
- Fixed overly strict handling of the EXTEND keyword; see "Changes in
behavior" above. (#124)
- Fixed many cases where an HDU's header would be marked as "modified" by
PyFITS and rewritten, even when no changes to the header are necessary.
(#125)
- Fixed a bug where the values of the PTYPEn keywords in a random groups HDU
were forced to be all lower-case when saving the file. (#130)
- Removed an unnecessary inline import in `ExtensionHDU.__setattr__` that was
causing some slowdown when opening files containing a large number of
extensions, plus a few other small (but not insignficant) performance
improvements thanks to Julian Taylor. (#133)
- Fixed a regression where header blocks containing invalid end-of-header
padding (i.e. null bytes instead of spaces) couldn't be parsed by PyFITS.
Such headers can be parsed again, but a warning is raised, as such headers
are not valid FITS. (#136)
- Fixed a memory leak where table data in random groups HDUs weren't being
garbage collected. (#138)
3.0.6 (2012-02-29)
------------------
Highlights
^^^^^^^^^^
The main reason for this release is to fix an issue that was introduced in
PyFITS 3.0.5 where merely opening a file containing scaled data (that is, with
non-trivial BSCALE and BZERO keywords) in 'update' mode would cause the data
to be automatically rescaled--possibly converting the data from ints to
floats--as soon as the file is closed, even if the application did not touch
the data. Now PyFITS will only rescale the data in an extension when the data
is actually accessed by the application. So opening a file in 'update' mode
in order to modify the header or append new extensions will not cause any
change to the data in existing extensions.
This release also fixes a few Windows-specific bugs found through more
extensive Windows testing, and other miscellaneous bugs.
Bug Fixes
^^^^^^^^^
- More accurate error messages when opening files containing invalid header
cards. (#109)
- Fixed a possible reference cycle/memory leak that was caught through more
extensive testing on Windows. (#112)
- Fixed 'ostream' mode to open the underlying file in 'wb' mode instead of 'w'
mode. (#112)
- Fixed a Windows-only issue where trying to save updates to a resized FITS
file could result in a crash due to there being open mmaps on that file.
(#112)
- Fixed a crash when trying to create a FITS table (i.e. with new_table())
from a Numpy array containing bool fields. (#113)
- Fixed a bug where manually initializing an ``HDUList`` with a list of of
HDUs wouldn't set the correct EXTEND keyword value on the primary HDU.
(#114)
- Fixed a crash that could occur when trying to deepcopy a Header in Python <
2.7. (#115)
- Fixed an issue where merely opening a scaled image in 'update' mode would
cause the data to be converted to floats when the file is closed. (#119)
3.0.5 (2012-01-30)
------------------
- Fixed a crash that could occur when accessing image sections of files
opened with memmap=True. (r1211)
- Fixed the inconsistency in the behavior of files opened in 'readonly' mode
when memmap=True vs. when memmap=False. In the latter case, although
changes to array data were not saved to disk, it was possible to update the
array data in memory. On the other hand with memmap=True, 'readonly' mode
prevented even in-memory modification to the data. This is what
'copyonwrite' mode was for, but difference in behavior was confusing. Now
'readonly' is equivalent to 'copyonwrite' when using memmap. If the old
behavior of denying changes to the array data is necessary, a new
'denywrite' mode may be used, though it is only applicable to files opened
with memmap. (r1275)
- Fixed an issue where files opened with memmap=True would return image data
as a raw numpy.memmap object, which can cause some unexpected
behaviors--instead memmap object is viewed as a numpy.ndarray. (r1285)
- Fixed an issue in Python 3 where a workaround for a bug in Numpy on Python 3
interacted badly with some other software, namely to vo.table package (and
possibly others). (r1320, r1337, and #110)
- Fixed buggy behavior in the handling of SIGINTs (i.e. Ctrl-C keyboard
interrupts) while flushing changes to a FITS file. PyFITS already prevented
SIGINTs from causing an incomplete flush, but did not clean up the signal
handlers properly afterwards, or reraise the keyboard interrupt once the
flush was complete. (r1321)
- Fixed a crash that could occur in Python 3 when opening files with checksum
checking enabled. (r1336)
- Fixed a small bug that could cause a crash in the `StreamingHDU` interface
when using Numpy below version 1.5.
- Fixed a crash that could occur when creating a new `CompImageHDU` from an
array of big-endian data. (#104)
- Fixed a crash when opening a file with extra zero padding at the end.
Though FITS files should not have such padding, it's not explictly forbidden
by the format either, and PyFITS shouldn't stumble over it. (#106)
- Fixed a major slowdown in opening tables containing large columns of string
values. (#111)
3.0.4 (2011-11-22)
------------------
- Fixed a crash when writing HCOMPRESS compressed images that could happen on
Python 2.5 and 2.6. (r1217)
- Fixed a crash when slicing an table in a file opened in 'readonly' mode with
memmap=True. (r1230)
- Writing changes to a file or writing to a new file verifies the output in
'fix' mode by default instead of 'exception'--that is, PyFITS will
automatically fix common FITS format errors rather than raising an
exception. (r1243)
- Fixed a bug where convenience functions such as getval() and getheader()
crashed when specifying just 'PRIMARY' as the extension to use (r1263).
- Fixed a bug that prevented passing keyword arguments (beyond the standard
data and header arguments) as positional arguments to the constructors of
extension HDU classes.
- Fixed some tests that were failing on Windows--in this case the tests
themselves failed to close some temp files and Windows refused to delete them
while there were still open handles on them. (r1295)
- Fixed an issue with floating point formatting in header values on Python 2.5
for Windows (and possibly other platforms). The exponent was zero-padded to
3 digits; although the FITS standard makes no specification on this, the
formatting is now normalized to always pad the exponent to two digits.
(r1295)
- Fixed a bug where long commentary cards (such as HISTORY and COMMENT) were
broken into multiple CONTINUE cards. However, commentary cards are not
expected to be found in CONTINUE cards. Instead these long cards are broken
into multiple commentary cards. (#97)
- GZIP/ZIP-compressed FITS files can be detected and opened regardless of
their filename extension. (#99)
- Fixed a serious bug where opening scaled images in 'update' mode and then
closing the file without touching the data would cause the file to be
corrupted. (#101)
3.0.3 (2011-10-05)
------------------
- Fixed several small bugs involving corner cases in record-valued keyword
cards (#70)
- In some cases HDU creation failed if the first keyword value in the header
was not a string value (#89)
- Fixed a crash when trying to compute the HDU checksum when the data array
contains an odd number of bytes (#91)
- Disabled an unnecessary warning that was displayed on opening compressed
HDUs with disable_image_compression = True (#92)
- Fixed a typo in code for handling HCOMPRESS compressed images.
3.0.2 (2011-09-23)
------------------
- The ``BinTableHDU.tcreate`` method and by extension the ``pyfits.tcreate``
function don't get tripped up by blank lines anymore (#14)
- The presence, value, and position of the EXTEND keyword in Primary HDUs is
verified when reading/writing a FITS file (#32)
- Improved documentation (in warning messages as well as in the handbook) that
PyFITS uses zero-based indexing (as one would expect for C/Python code, but
contrary to the PyFITS standard which was written with FORTRAN in mind)
(#68)
- Fixed a bug where updating a header card comment could cause the value to be
lost if it had not already been read from the card image string.
- Fixed a related bug where changes made directly to Card object in a header
(i.e. assigning directly to card.value or card.comment) would not propagate
when flushing changes to the file (#69) [Note: This and the bug above it
were originally reported as being fixed in version 3.0.1, but the fix was
never included in the release.]
- Improved file handling, particularly in Python 3 which had a few small file
I/O-related bugs (#76)
- Fixed a bug where updating a FITS file would sometimes cause it to lose its
original file permissions (#79)
- Fixed the handling of TDIMn keywords; 3.0 added support for them, but got
the axis order backards (they were treated as though they were row-major)
(#82)
- Fixed a crash when a FITS file containing scaled data is opened and
immediately written to a new file without explicitly viewing the data first
(#84)
- Fixed a bug where creating a table with columns named either 'names' or
'formats' resulted in an infinite recursion (#86)
3.0.1 (2011-09-12)
------------------
- Fixed a bug where updating a header card comment could cause the value to be
lost if it had not already been read from the card image string.
- Changed ``_TableBaseHDU.data`` so that if the data contain an empty table a
``FITS_rec`` object with zero rows is returned rather than ``None``.
- The ``.key`` attribute of ``RecordValuedKeywordCards`` now returns the full
keyword+field-specifier value, instead of just the plain keyword (#46)
- Fixed a related bug where changes made directly to Card object in a header
(i.e. assigning directly to card.value or card.comment) would not propagate
when flushing changes to the file (#69)
- Fixed a bug where writing a table with zero rows could fail in some cases
(#72)
- Miscellanous small bug fixes that were causing some tests to fail,
particularly on Python 3 (#74, #75)
- Fixed a bug where creating a table column from an array in non-native byte
order would not preserve the byte order, thus interpreting the column array
using the wrong byte order (#77)
3.0.0 (2011-08-23)
--------------------
- Contains major changes, bumping the version to 3.0
- Large amounts of refactoring and reorganization of the code; tried to
preserve public API backwards-compatibility with older versions (private API
has many changes and is not guaranteed to be backwards-compatible). There
are a few small public API changes to be aware of:
* The pyfits.rec module has been removed completely. If your version of
numpy does not have the numpy.core.records module it is too old to be used
with PyFITS.
* The ``Header.ascardlist()`` method is deprecated--use the ``.ascard``
attribute instead.
* ``Card`` instances have a new ``.cardimage`` attribute that should be used
rather than ``.ascardimage()``, which may become deprecated.
* The ``Card.fromstring()`` method is now a classmethod. It returns a new
``Card`` instance rather than modifying an existing instance.
* The ``req_cards()`` method on HDU instances has changed: The ``pos``
argument is not longer a string. It is either an integer value (meaning
the card's position must match that value) or it can be a function that
takes the card's position as it's argument, and returns True if the
position is valid. Likewise, the ``test`` argument no longer takes a
string, but instead a function that validates the card's value and returns
True or False.
* The ``get_coldefs()`` method of table HDUs is deprecated. Use the
``.columns`` attribute instead.
* The ``ColDefs.data`` attribute is deprecated--use ``ColDefs.columns``
instead (though in general you shouldn't mess with it directly--it might
become internal at some point).
* ``FITS_record`` objects take ``start`` and ``end`` as arguments instead of
``startColumn`` and ``endColumn`` (these are rarely created manually, so
it's unlikely that this change will affect anyone).
* ``BinTableHDU.tcreate()`` is now a classmethod, and returns a new
``BinTableHDU`` instance.
* Use ``ExtensionHDU`` and ``NonstandardExtHDU`` for making new extension HDU
classes. They are now public interfaces, wheres previously they were
private and prefixed with underscores.
* Possibly others--please report if you find any changes that cause
difficulties.
- Calls to deprecated functions will display a Deprecation warning. However,
in Python 2.7 and up Deprecation warnings are ignored by default, so run
Python with the `-Wd` option to see if you're using any deprecated
functions. If we get close to actually removing any functions, we might
make the Deprecation warnings display by default.
- Added basic Python 3 support
- Added support for multi-dimensional columns in tables as specified by the
TDIMn keywords (#47)
- Fixed a major memory leak that occurred when creating new tables with the
``new_table()`` function (#49)
be padded with zero-bytes) vs ASCII tables (where strings are padded with
spaces) (#15)
- Fixed a bug in which the case of Random Access Group parameters names was not
preserved when writing (#41)
- Added support for binary table fields with zero width (#42)
- Added support for wider integer types in ASCII tables; although this is non-
standard, some GEIS images require it (#45)
- Fixed a bug that caused the index_of() method of HDULists to crash when the
HDUList object is created from scratch (#48)
- Fixed the behavior of string padding in binary tables (where strings should
be padded with nulls instead of spaces)
- Fixed a rare issue that caused excessive memory usage when computing
checksums using a non-standard block size (see r818)
- Add support for forced uint data in image sections (#53)
- Fixed an issue where variable-length array columns were not extended when
creating a new table with more rows than the original (#54)
- Fixed tuple and list-based indexing of FITS_rec objects (#55)
- Fixed an issue where BZERO and BSCALE keywords were appended to headers in
the wrong location (#56)
- ``FITS_record`` objects (table rows) have full slicing support, including
stepping, etc. (#59)
- Fixed a bug where updating multiple files simultaneously (such as when
running parallel processes) could lead to a race condition with mktemp()
(#61)
- Fixed a bug where compressed image headers were not in the order expected by
the funpack utility (#62)
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Changes from 2.2.1 to 2.2.2 =========================== * The `copy_args` argument of `NumExpr` function has been brought back. This has been mainly necessary for compatibility with PyTables < 3.0, which I decided to continue to support. Fixed #115. * The `__nonzero__` method in `ExpressionNode` class has been commented out. This is also for compatibility with PyTables < 3.0. See #24 for details. * Fixed the type of some parameters in the C extension so that s390 architecture compiles. Fixes #116. Thank to Antonio Valentino for reporting and the patch. Changes from 2.2 to 2.2.1 ========================= * Fixes a secondary effect of "from numpy.testing import `*`", where division is imported now too, so only then necessary functions from there are imported now. Thanks to Christoph Gohlke for the patch. Changes from 2.1 to 2.2 ======================= * [LICENSE] Fixed a problem with the license of the numexpr/win32/pthread.{c,h} files emulating pthreads on Windows platforms. After persmission from the original authors is granted, these files adopt the MIT license and can be redistributed without problems. See issue #109 for details (https://code.google.com/p/numexpr/issues/detail?id=110). * [ENH] Improved the algorithm to decide the initial number of threads to be used. This was necessary because by default, numexpr was using a number of threads equal to the detected number of cores, and this can be just too much for moder systems where this number can be too high (and counterporductive for performance in many cases). Now, the 'NUMEXPR_NUM_THREADS' environment variable is honored, and in case this is not present, a maximum number of *8* threads are setup initially. The new algorithm is fully described in the Users Guide now in the note of 'General routines' section: https://code.google.com/p/numexpr/wiki/UsersGuide#General_routines. Closes #110. * [ENH] numexpr.test() returns `TestResult` instead of None now. Closes #111. * [FIX] Modulus with zero with integers no longer crashes the interpreter. It nows puts a zero in the result. Fixes #107. * [API CLEAN] Removed `copy_args` argument of `evaluate`. This should only be used by old versions of PyTables (< 3.0). * [DOC] Documented the `optimization` and `truediv` flags of `evaluate` in Users Guide (https://code.google.com/p/numexpr/wiki/UsersGuide). Changes from 2.0.1 to 2.1 =========================== * Dropped compatibility with Python < 2.6. * Improve compatibiity with Python 3: - switch from PyString to PyBytes API (requires Python >= 2.6). - fixed incompatibilities regarding the int/long API - use the Py_TYPE macro - use the PyVarObject_HEAD_INIT macro instead of PyObject_HEAD_INIT * Fixed several issues with different platforms not supporting multithreading or subprocess properly (see tickets #75 and #77). * Now, when trying to use pure Python boolean operators, 'and', 'or' and 'not', an error is issued suggesting that '&', '|' and '~' should be used instead (fixes #24). Changes from 2.0 to 2.0.1 ========================= * Added compatibility with Python 2.5 (2.4 is definitely not supported anymore). * `numexpr.evaluate` is fully documented now, in particular the new `out`, `order` and `casting` parameters. * Reduction operations are fully documented now. * Negative axis in reductions are not supported (they have never been actually), and a `ValueError` will be raised if they are used. Changes from 1.x series to 2.0 ============================== - Added support for the new iterator object in NumPy 1.6 and later. This allows for better performance with operations that implies broadcast operations, fortran-ordered or non-native byte orderings. Performance for other scenarios is preserved (except for very small arrays). - Division in numexpr is consistent now with Python/NumPy. Fixes #22 and #58. - Constants like "2." or "2.0" must be evaluated as float, not integer. Fixes #59. - `evaluate()` function has received a new parameter `out` for storing the result in already allocated arrays. This is very useful when dealing with large arrays, and a allocating new space for keeping the result is not acceptable. Closes #56. - Maximum number of threads raised from 256 to 4096. Machines with a higher number of cores will still be able to import numexpr, but limited to 4096 (which is an absurdly high number already).
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Changelog:
0.8.7 2012-11-27
BUG FIXES
* Fix use of alternates in ``DiskObjectStore``.{__contains__,__iter__}.
(Dmitriy)
* Fix compatibility with Python 2.4. (David Carr)
0.8.6 2012-11-09
API CHANGES
* dulwich.__init__ no longer imports client, protocol, repo and
server modules. (Jelmer Vernooij)
FEATURES
* ConfigDict now behaves more like a dictionary.
(Adam 'Cezar' Jenkins, issue #58)
* HTTPGitApplication now takes an optional
`fallback_app` argument. (Jonas Haag, issue #67)
* Support for large pack index files. (Jameson Nash)
TESTING
* Make index entry tests a little bit less strict, to cope with
slightly different behaviour on various platforms.
(Jelmer Vernooij)
* ``setup.py test`` (available when setuptools is installed) now
runs all tests, not just the basic unit tests.
(Jelmer Vernooij)
BUG FIXES
* Commit._deserialize now actually deserializes the current state rather than
the previous one. (Yifan Zhang, issue #59)
* Handle None elements in lists of TreeChange objects. (Alex Holmes)
* Support cloning repositories without HEAD set.
(D-Key, Jelmer Vernooij, issue #69)
* Support ``MemoryRepo.get_config``. (Jelmer Vernooij)
* In ``get_transport_and_path``, pass extra keyword arguments on to
HttpGitClient. (Jelmer Vernooij)
0.8.5 2012-03-29
BUG FIXES
* Avoid use of 'with' in dulwich.index. (Jelmer Vernooij)
* Be a little bit strict about OS behaviour in index tests.
Should fix the tests on Debian GNU/kFreeBSD. (Jelmer Vernooij)
0.8.4 2012-03-28
BUG FIXES
* Options on the same line as sections in config files are now supported.
(Jelmer Vernooij, #920553)
* Only negotiate capabilities that are also supported by the server.
(Rod Cloutier, Risto Kankkunen)
* Fix parsing of invalid timezone offsets with two minus signs.
(Jason R. Coombs, #697828)
* Reset environment variables during tests, to avoid
test isolation leaks reading ~/.gitconfig. (Risto Kankkunen)
TESTS
* $HOME is now explicitly specified for tests that use it to read
``~/.gitconfig``, to prevent test isolation issues.
(Jelmer Vernooij, #920330)
FEATURES
* Additional arguments to get_transport_and_path are now passed
on to the constructor of the transport. (Sam Vilain)
* The WSGI server now transparently handles when a git client submits data
using Content-Encoding: gzip.
(David Blewett, Jelmer Vernooij)
* Add dulwich.index.build_index_from_tree(). (milki)
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== 2.7.0 / 2013-08-03 Charlie Savage * Do not call Ruby code during a GC cycle (Dirkjan Bussink) * Fix thread error handling (Geoffrey Giesemann) * Set libxml error handler when a libxml-ruby error handler is set (Geoffrey Giesemann) * Fix tests for nil TypeErrors (Geoffrey Giesemann) * Fix segmentation fault for issue #62. The deregisternode function was incorrectly NULLing out a node's mark and free functions for nodes removed from a document tree (Charlie Savage) * Cleanup writer code (Charlie Savage) * Fix equality check of LibXML::XML::Error against other objects (Michał Szajbe) * Fix XML::Writer.set_quote_char UT, wrong expected string (#63). (julp) * Fix potential segfault when GC occurs while creating ns from xpath (Timothy Elliott) * Fix segmentation fault after failing to load external schema (#59). (Clifford Heath)
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Incompatible Changes: * can no longer use both `\' and `:' (didn't work anyway) New Features: * Handling of run-time errors (default: die) is now overridable by subclasses via signature_error_handler(). [github #54] * Can now have aliased named parameters. [github #57] * remove dependency on Devel::BeginLift [github #39] * can now use `when' to specify default conditions [github #48] * can use `//=' as a shortcut for `when undef' [github #45] * can now provide `where' constraints in addition to (or instead of) a type [github #7] * can now use `...' to disable further argument checking [github #49] * can now specify more than one alternative in type unions [github #55] * can now nest parameterized types Bug Fixes: * Removed experimental smartmatch warnings * Don't require Data::Alias for named params unless you have to [github #71] * Fixed obscure bug where an eval in Method::Signatures wouldn't be skipped when carp'ing (i.e. in carp_location_for()) [github #72] * Data::Alias is only loaded when needed avoiding a threads + eval bug in most cases and improving compile time performance. [rt.cpan.org 82922, github #62] * Compile-time errors now reporting proper line numbers. [github #61] * Trailing commas on parameter lists are now ok. [rt.cpan.org 81364] * Default condition of `when {}' now interpreted as `when { $_ ~~ {} }' (avoids parse error). [github #60] Optimizations: * better signature parsing using PPI [github #11] Distribution Fixes: * Fixed failing test in 5.10.0 (uncovered by CPAN Testers) * Fixed repo link in metadata (thanks dsteinbrunner) [github #87] * Add M::S::Parameter to MANIFEST [github #76] * Change representation of Infinity to work on Win32 [github #75] * Fixed stray detritus in MANIFEST. * Somehow my last-minute fix to the new error handler test didn't make it in; this will fix "Can't locate Moose.pm" errors. * Fixed test failing on 5.10.0 as per github #59. * Fixed subtests failing on Test::More's prior to 0.96. Docs: * Updated close parend problem to include quotes and a workaround [rt.cpan.org 85925] * Fixed some typos (thanks dsteinbrunner) [github #88] * Found and fixed missing parend * Minor clarifications here and there. * Clarified what doesn't work in Perl 5.8. * Added Function::Parameters to See Also section. * Updated copyright. * documented all new features * new ASCI-art breakdown of signature syntax * minor tweaks and corrections Misc: * Rearranged so signature is now an object [github #30] * Add hook for Travis CI [github #78] * Failure to parse parameters will now produce a more useful error.
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FITS (Flexible Image Transport System) is a data format most used in astronomy.
PyFITS is a Python module for reading, writing, and manipulating FITS files.
The module uses Python's object-oriented features to provide quick, easy, and
efficient access to FITS files. The use of Python's array syntax enables
immediate access to any FITS extension, header cards, or data items.
Changes to 2.4.0 (in py-pyfits):
Changelog
===========
3.2 (2013-11-26)
----------------
Highlights
^^^^^^^^^^
- Rewrote CFITSIO-based backend for handling tile compression of FITS files.
It now uses a standard CFITSIO instead of heavily modified pieces of CFITSIO
as before. PyFITS ships with its own copy of CFITSIO v3.35 which supports
the latest version of the Tiled Image Convention (v2.3), but system
packagers may choose instead to strip this out in favor of a
system-installed version of CFITSIO. Earlier versions may work, but nothing
earlier than 3.28 has been tested yet. (#169)
- Added support for reading and writing tables using the Q format for columns.
The Q format is identical to the P format (variable-length arrays) except
that it uses 64-bit integers for the data descriptors, allowing more than
4 GB of variable-length array data in a single table. (#160)
- Added initial support for table columns containing pseudo-unsigned integers.
This is currently enabled by using the ``uint=True`` option when opening
files; any table columns with the correct BZERO value will be interpreted
and returned as arrays of unsigned integers.
- Some refactoring of the table and ``FITS_rec`` modules in order to better
separate the details of the FITS binary and ASCII table data structures from
the HDU data structures that encapsulate them. Most of these changes should
not be apparent to users (but see API Changes below).
API Changes
^^^^^^^^^^^
- Assigning to values in ``ColDefs.names``, ``ColDefs.formats``,
``ColDefs.nulls`` and other attributes of ``ColDefs`` instances that return
lists of column properties is no longer supported. Assigning to those lists
will no longer update the corresponding columns. Instead, please just
modify the ``Column`` instances directly (``Column.name``, ``Column.null``,
etc.)
- The ``pyfits.new_table`` function is marked "pending deprecation". This
does not mean it will be removed outright or that its functionality has
changed. It will likely be replaced in the future for a function with
similar, if not subtly different functionality. A better, if not slightly
more verbose approach is to use ``pyfits.FITS_rec.from_columns`` to create
a new ``FITS_rec`` table--this has the same interface as
``pyfits.new_table``. The difference is that it returns a plan ``FITS_rec``
array, and not an HDU instance. This ``FITS_rec`` object can then be used
as the data argument in the constructors for ``BinTableHDU`` (for binary
tables) or ``TableHDU`` (for ASCII tables). This is analogous to creating
an ``ImageHDU`` by passing in an image array.
``pyfits.FITS_rec.from_columns`` is just a simpler way of creating a
FITS-compatible recarray from a FITS column specification.
- The ``updateHeader``, ``updateHeaderData``, and ``updateCompressedData``
methods of the ``CompDataHDU`` class are pending deprecation and moved to
internal methods. The operation of these methods depended too much on
internal state to be used safely by users; instead they are invoked
automatically in the appropriate places when reading/writing compressed image
HDUs.
- The ``CompDataHDU.compData`` attribute is pending deprecation in favor of
the clearer and more PEP-8 compatible ``CompDataHDU.compressed_data``.
- The constructor for ``CompDataHDU`` has been changed to accept new keyword
arguments. The new keyword arguments are essentially the same, but are in
underscore_separated format rather than camelCase format. The old arguments
are still pending deprecation.
- The internal attributes of HDU classes ``_hdrLoc``, ``_datLoc``, and
``_datSpan`` have been replaced with ``_header_offset``, ``_data_offset``,
and ``_data_size`` respectively. The old attribute names are still pending
deprecation. This should only be of interest to advanced users who have
created their own HDU subclasses.
- The following previously deprecated functions and methods have been removed
entirely: ``createCard``, ``createCardFromString``, ``upperKey``,
``ColDefs.data``, ``setExtensionNameCaseSensitive``, ``_File.getfile``,
``_TableBaseHDU.get_coldefs``, ``Header.has_key``, ``Header.ascardlist``.
If you run your code with a previous version of PyFITS (>= 3.0, < 3.2) with
the ``python -Wd`` argument, warnings for all deprecated interfaces still in
use will be displayed.
- Interfaces that were pending deprecation are now fully deprecated. These
include: ``create_card``, ``create_card_from_string``, ``upper_key``,
``Header.get_history``, and ``Header.get_comment``.
- The ``.name`` attribute on HDUs is now directly tied to the HDU's header, so
that if ``.header['EXTNAME']`` changes so does ``.name`` and vice-versa.
- The ``pyfits.file.PYTHON_MODES`` constant dict was renamed to
``pyfits.file.PYFITS_MODES`` which better reflects its purpose. This is
rarely used by client code, however. Support for the old name will be
removed by PyFITS 3.4.
Other Changes and Additions
^^^^^^^^^^^^^^^^^^^^^^^^^^^
- The new compression code also adds support for the ZQUANTIZ and ZDITHER0
keywords added in more recent versions of this FITS Tile Compression spec.
This includes support for lossless compression with GZIP. (#198) By default
no dithering is used, but the ``SUBTRACTIVE_DITHER_1`` and
``SUBTRACTIVE_DITHER_2`` methods can be enabled by passing the correct
constants to the ``quantize_method`` argument to the ``CompImageHDU``
constuctor. A seed can be manually specified, or automatically generated
using either the system clock or checksum-based methods via the
``dither_seed`` argument. See the documentation for ``CompImageHDU`` for
more details. (#198) (spacetelescope/PYFITS#32)
- Images compressed with the Tile Compression standard can now be larger than
4 GB through support of the Q format. (#159)
- All HDUs now have a ``.ver`` ``.level`` attribute that returns the value of
the EXTVAL and EXTLEVEL keywords from that HDU's header, if the exist. This
was added for consistency with the ``.name`` attribute which returns the
EXTNAME value from the header.
- Then ``Column`` and ``ColDefs`` classes have new ``.dtype`` attributes
which give the Numpy dtype for the column data in the first case, and the
full Numpy compound dtype for each table row in the latter case.
- There was an issue where new tables created defaulted the values in all
string columns to '0.0'. Now string columns are filled with empty strings
by default--this seems a less surprising default, but it may cause
differences with tables created with older versions of PyFITS.
- Improved round-tripping and preservation of manually assigned column
attributes (``TNULLn``, ``TSCALn``, etc.) in table HDU headers.
(astropy/astropy#996)
Bug Fixes
^^^^^^^^^
- Binary tables containing compressed images may, optionally, contain other
columns unrelated to the tile compression convention. Although this is an
uncommon use case, it is permitted by the standard. (#159)
- Reworked some of the file I/O routines to allow simpler, more consistent
mapping between OS-level file modes ('rb', 'wb', 'ab', etc.) and the more
"PyFITS-specific" modes used by PyFITS like "readonly" and "update".
That is, if reading a FITS file from an open file object, it doesn't matter
as much what "mode" it was opened in so long as it has the right
capabilities (read/write/etc.) Also works around bugs in the Python io
module in 2.6+ with regard to file modes. (spacetelescope/PyFITS#33)
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (astropy/astropy#968)
3.1.3 (2013-11-26)
------------------
- Disallowed assigning NaN and Inf floating point values as header values,
since the FITS standard does not define a way to represent them in. Because
this is undefined, the previous behavior did not make sense and produced
invalid FITS files. (spacetelescope/PyFITS#11)
- Added a workaround for a bug in 64-bit OSX that could cause truncation when
writing files greater than 2^32 bytes in size. (spacetelescope/PyFITS#28)
- Fixed a long-standing issue where writing binary tables did not correctly
write the TFORMn keywords for variable-length array columns (they ommitted
the max array length parameter of the format). This was thought fixed in
v3.1.2, but it was only fixed there for compressed image HDUs and not for
binary tables in general.
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (Backported from 3.2)
3.0.12 (2013-11-26)
-------------------
- Disallowed assigning NaN and Inf floating point values as header values,
since the FITS standard does not define a way to represent them in. Because
this is undefined, the previous behavior did not make sense and produced
invalid FITS files. (Backported from 3.1.3)
- Added a workaround for a bug in 64-bit OSX that could cause truncation when
writing files greater than 2^32 bytes in size. (Backported from 3.1.3)
- Fixed a long-standing issue where writing binary tables did not correctly
write the TFORMn keywords for variable-length array columns (they ommitted
the max array length parameter of the format). This was thought fixed in
v3.1.2, but it was only fixed there for compressed image HDUs and not for
binary tables in general. (Backported from 3.1.3)
- Fixed an obscure issue that can occur on systems that don't have flush to
memory-mapped files implemented (namely GNU Hurd). (Backported from 3.2)
3.1.2 (2013-04-22)
------------------
- When an error occurs opening a file in fitsdiff the exception message will
now at least mention which file had the error. (#168)
- Fixed support for opening gzipped FITS files by filename in a writeable mode
(PyFITS has supported writing to gzip files for some time now, but only
enabled it when GzipFile objects were passed to ``pyfits.open()`` due to
some legacy code preventing full gzip support. (#195)
- Added a more helpful error message in the case of malformatted FITS files
that contain non-float NULL values in an ASCII table but are missing the
required TNULLn keywords in the header. (#197)
- Fixed an (apparently long-standing) issue where writing compressed images
did not correctly write the TFORMn keywords for variable-length array
columns (they ommitted the max array length parameter of the format). (#199)
- Slightly refactored how tables containing variable-length array columns are
handled to add two improvements: Fixes an issue where accessing the data
after a call to the `pyfits.getdata` convenience function caused an
exception, and allows the VLA data to be read from an existing mmap of the
FITS file. (#200)
- Fixed a bug that could occur when opening a table containing
multi-dimensional columns (i.e. via the TDIMn keyword) and then writing it
out to a new file. (#201)
- Added use of the console_scripts entry point to install the fitsdiff and
fitscheck scripts, which if nothing else provides better Windows support.
The generated scripts now override the ones explicitly defined in the
scripts/ directory (which were just trivial stubs to begin with). (#202)
- Fixed a bug on Python 3 where attempting to open a non-existent file on
Python 3 caused a seemingly unrelated traceback. (#203)
- Fixed a bug in fitsdiff that reported two header keywords containing NaN
as value as different. (#204)
- Fixed an issue in the tests that caused some tests to fail if pyfits is
installed with read-only permissions. (#208)
- Fixed a bug where instantiating a ``BinTableHDU`` from a numpy array
containing boolean fields converted all the values to ``False``. (#215)
- Fixed an issue where passing an array of integers into the constructor of
``Column()`` when the column type is floats of the same byte width caused the
column array to become garbled. (#218)
- Fixed inconsistent behavior in creating CONTINUE cards from byte strings
versus unicode strings in Python 2--CONTINUE cards can now be created
properly from unicode strings (so long as they are convertable to ASCII).
(spacetelescope/PyFITS#1)
- Fixed a couple cases where creating a new table using TDIMn in some of the
columns could caused a crash. (spacetelescope/PyFITS#3)
- Fixed a bug in parsing HIERARCH keywords that do not have a space after
the first equals sign (before the value). (spacetelescope/PyFITS#5)
- Prevented extra leading whitespace on HIERARCH keywords from being treated
as part of the keyword. (spacetelescope/PyFITS#6)
- Fixed a bug where HIERARCH keywords containing lower-case letters was
mistakenly marked as invalid during header validation.
(spacetelescope/PyFITS#7)
- Fixed an issue that was ancillary to (spacetelescope/PyFITS#7) where the
``Header.index()`` method did not work correctly with HIERARCH keywords
containing lower-case letters.
3.0.11 (2013-04-17)
-------------------
- Fixed support for opening gzipped FITS files by filename in a writeable mode
(PyFITS has supported writing to gzip files for some time now, but only
enabled it when GzipFile objects were passed to ``pyfits.open()`` due to
some legacy code preventing full gzip support. Backported from 3.1.2. (#195)
- Added a more helpful error message in the case of malformatted FITS files
that contain non-float NULL values in an ASCII table but are missing the
required TNULLn keywords in the header. Backported from 3.1.2. (#197)
- Fixed an (apparently long-standing) issue where writing compressed images did
not correctly write the TFORMn keywords for variable-length array columns
(they ommitted the max array length parameter of the format). Backported from
3.1.2. (#199)
- Slightly refactored how tables containing variable-length array columns are
handled to add two improvements: Fixes an issue where accessing the data
after a call to the `pyfits.getdata` convenience function caused an
exception, and allows the VLA data to be read from an existing mmap of the
FITS file. Backported from 3.1.2. (#200)
- Fixed a bug that could occur when opening a table containing
multi-dimensional columns (i.e. via the TDIMn keyword) and then writing it
out to a new file. Backported from 3.1.2. (#201)
- Fixed a bug on Python 3 where attempting to open a non-existent file on
Python 3 caused a seemingly unrelated traceback. Backported from 3.1.2.
(#203)
- Fixed a bug in fitsdiff that reported two header keywords containing NaN
as value as different. Backported from 3.1.2. (#204)
- Fixed an issue in the tests that caused some tests to fail if pyfits is
installed with read-only permissions. Backported from 3.1.2. (#208)
- Fixed a bug where instantiating a ``BinTableHDU`` from a numpy array
containing boolean fields converted all the values to ``False``. Backported
from 3.1.2. (#215)
- Fixed an issue where passing an array of integers into the constructor of
``Column()`` when the column type is floats of the same byte width caused the
column array to become garbled. Backported from 3.1.2. (#218)
- Fixed a couple cases where creating a new table using TDIMn in some of the
columns could caused a crash. Backported from 3.1.2.
(spacetelescope/PyFITS#3)
3.1.1 (2013-01-02)
------------------
This is a bug fix release for the 3.1.x series.
Bug Fixes
^^^^^^^^^
- Improved handling of scaled images and pseudo-unsigned integer images in
compressed image HDUs. They now work more transparently like normal image
HDUs with support for the ``do_not_scale_image_data`` and ``uint`` options,
as well as ``scale_back`` and ``save_backup``. The ``.scale()`` method
works better too. (#88)
- Permits non-string values for the EXTNAME keyword when reading in a file,
rather than throwing an exception due to the malformatting. Added
verification for the format of the EXTNAME keyword when writing. (#96)
- Added support for EXTNAME and EXTVER in PRIMARY HDUs. That is, if EXTNAME
is specified in the header, it will also be reflected in the ``.name``
attribute and in ``pyfits.info()``. These keywords used to be verboten in
PRIMARY HDUs, but the latest version of the FITS standard allows them.
(#151)
- HCOMPRESS can again be used to compress data cubes (and higher-dimensional
arrays) so long as the tile size is effectively 2-dimensional. In fact,
PyFITS will automatically use compatible tile sizes even if they're not
explicitly specified. (#171)
- Added support for the optional ``endcard`` parameter in the
``Header.fromtextfile()`` and ``Header.totextfile()`` methods. Although
``endcard=False`` was a reasonable default assumption, there are still text
dumps of FITS headers that include the END card, so this should have been
more flexible. (#176)
- Fixed a crash when running fitsdiff on two empty (that is, zero row) tables.
(#178)
- Fixed an issue where opening files containing random groups HDUs in update
mode could cause an unnecessary rewrite of the file even if none of the
data is modified. (#179)
- Fixed a bug that could caused a deadlock in the filesystem on OSX if PyFITS
is used with Numpy 1.7 in some cases. (#180)
- Fixed a crash when generating diff reports from diffs using the
``ignore_comments`` options. (#181)
- Fixed some bugs with WCS Paper IV record-valued keyword cards:
- Cards that looked kind of like RVKCs but were not intended to be were
over-permissively treated as such--commentary keywords like COMMENT and
HISTORY were particularly affected. (#183)
- Looking up a card in a header by its standard FITS keyword only should
always return the raw value of that card. That way cards containing
values that happen to valid RVKCs but were not intended to be will still
be treated like normal cards. (#184)
- Looking up a RVKC in a header with only part of the field-specifier (for
example "DP1.AXIS" instead of "DP1.AXIS.1") was implicitly treated as a
wildcard lookup. (#184)
- Fixed a crash when diffing two FITS files where at least one contains a
compressed image HDU which was not recognized as an image instead of a
table. (#187)
- Fixed bugs in the backwards compatibility layer for the ``CardList.index``
and ``CardList.count`` methods. (#190)
- Improved ``__repr__`` and text file representation of cards with long values
that are split into CONTINUE cards. (#193)
- Fixed a crash when trying to assign a long (> 72 character) value to blank
('') keywords. This also changed how blank keywords are represented--there
are still exactly 8 spaces before any commentary content can begin; this
*may* affect the exact display of header cards that assumed there could be
fewer spaces in a blank keyword card before the content begins. However, the
current approach is more in line with the requirements of the FITS standard.
(#194)
3.0.10 (2013-01-02)
-------------------
- Improved handling of scaled images and pseudo-unsigned integer images in
compressed image HDUs. They now work more transparently like normal image
HDUs with support for the ``do_not_scale_image_data`` and ``uint`` options,
as well as ``scale_back`` and ``save_backup``. The ``.scale()`` method
works better too. Backported from 3.1.1. (#88)
- Permits non-string values for the EXTNAME keyword when reading in a file,
rather than throwing an exception due to the malformatting. Added
verification for the format of the EXTNAME keyword when writing. Backported
from 3.1.1. (#96)
- Added support for EXTNAME and EXTVER in PRIMARY HDUs. That is, if EXTNAME
is specified in the header, it will also be reflected in the ``.name``
attribute and in ``pyfits.info()``. These keywords used to be verbotten in
PRIMARY HDUs, but the latest version of the FITS standard allows them.
Backported from 3.1.1. (#151)
- HCOMPRESS can again be used to compress data cubes (and higher-dimensional
arrays) so long as the tile size is effectively 2-dimensional. In fact,
PyFITS will not automatically use compatible tile sizes even if they're not
explicitly specified. Backported from 3.1.1. (#171)
- Fixed a bug when writing out files containing zero-width table columns,
where the TFIELDS keyword would be updated incorrectly, leaving the table
largely unreadable. Backported from 3.1.0. (#174)
- Fixed an issue where opening files containing random groups HDUs in update
mode could cause an unnecessary rewrite of the file even if none of the
data is modified. Backported from 3.1.1. (#179)
- Fixed a bug that could caused a deadlock in the filesystem on OSX if PyFITS
is used with Numpy 1.7 in some cases. Backported from 3.1.1. (#180)
3.1 (2012-08-08)
----------------
Highlights
^^^^^^^^^^
- The ``Header`` object has been significantly reworked, and ``CardList``
objects are now deprecated (their functionality folded into the ``Header``
class). See API Changes below for more details.
- Memory maps are now used by default to access HDU data. See API Changes
below for more details.
- Now includes a new version of the ``fitsdiff`` program for comparing two
FITS files, and a new FITS comparison API used by ``fitsdiff``. See New
Features below.
API Changes
^^^^^^^^^^^
- The ``Header`` class has been rewritten, and the ``CardList`` class is
deprecated. Most of the basic details of working with FITS headers are
unchanged, and will not be noticed by most users. But there are differences
in some areas that will be of interest to advanced users, and to application
developers. For full details of the changes, see the "Header Interface
Transition Guide" section in the PyFITS documentation. See ticket #64 on
the PyFITS Trac for futher details and background. Some highlights are
listed below:
* The Header class now fully implements the Python dict interface, and can
be used interchangably with a dict, where the keys are header keywords.
* New keywords can be added to the header using normal keyword assignment
(previously it was necessary to use ``Header.update`` to add new
keywords). For example::
>>> header['NAXIS'] = 2
will update the existing 'FOO' keyword if it already exists, or add a new
one if it doesn't exist, just like a dict.
* It is possible to assign both a value and a comment at the same time using
a tuple::
>>> header['NAXIS'] = (2, 'Number of axes')
* To add/update a new card and ensure it's added in a specific location, use
``Header.set()``::
>>> header.set('NAXIS', 2, 'Number of axes', after='BITPIX')
This works the same as the old ``Header.update()``. ``Header.update()``
still works in the old way too, but is deprecated.
* Although ``Card`` objects still exist, it generally is not necessary to
work with them directly. ``Header.ascardlist()``/``Header.ascard`` are
deprecated and should not be used. To directly access the ``Card``
objects in a header, use ``Header.cards``.
* To access card comments, it is still possible to either go through the
card itself, or through ``Header.comments``. For example::
>>> header.cards['NAXIS'].comment
Number of axes
>>> header.comments['NAXIS']
Number of axes
* ``Card`` objects can now be used interchangeably with
``(keyword, value, comment)`` 3-tuples. They still have ``.value`` and
``.comment`` attributes as well. The ``.key`` attribute has been renamed
to ``.keyword`` for consistency, though ``.key`` is still supported (but
deprecated).
- Memory mapping is now used by default to access HDU data. That is,
``pyfits.open()`` uses ``memmap=True`` as the default. This provides better
performance in the majority of use cases--there are only some I/O intensive
applications where it might not be desirable. Enabling mmap by default also
enabled finding and fixing a large number of bugs in PyFITS' handling of
memory-mapped data (most of these bug fixes were backported to PyFITS
3.0.5). (#85)
* A new ``pyfits.USE_MEMMAP`` global variable was added. Set
``pyfits.USE_MEMMAP = False`` to change the default memmap setting for
opening files. This is especially useful for controlling the behavior in
applications where pyfits is deeply embedded.
* Likewise, a new ``PYFITS_USE_MEMMAP`` environment variable is supported.
Set ``PYFITS_USE_MEMMAP = 0`` in your environment to change the default
behavior.
- The ``size()`` method on HDU objects is now a ``.size`` property--this
returns the size in bytes of the data portion of the HDU, and in most cases
is equivalent to ``hdu.data.nbytes`` (#83)
- ``BinTableHDU.tdump`` and ``BinTableHDU.tcreate`` are deprecated--use
``BinTableHDU.dump`` and ``BinTableHDU.load`` instead. The new methods
output the table data in a slightly different format from previous versions,
which places quotes around each value. This format is compatible with data
dumps from previous versions of PyFITS, but not vice-versa due to a parsing
bug in older versions.
- Likewise the ``pyfits.tdump`` and ``pyfits.tcreate`` convenience function
versions of these methods have been renamed ``pyfits.tabledump`` and
``pyfits.tableload``. The old deprecated, but currently retained for
backwards compatibility. (r1125)
- A new global variable ``pyfits.EXTENSION_NAME_CASE_SENSITIVE`` was added.
This serves as a replacement for ``pyfits.setExtensionNameCaseSensitive``
which is not deprecated and may be removed in a future version. To enable
case-sensitivity of extension names (i.e. treat 'sci' as distict from 'SCI')
set ``pyfits.EXTENSION_NAME_CASE_SENSITIVE = True``. The default is
``False``. (r1139)
- A new global configuration variable ``pyfits.STRIP_HEADER_WHITESPACE`` was
added. By default, if a string value in a header contains trailing
whitespace, that whitespace is automatically removed when the value is read.
Now if you set ``pyfits.STRIP_HEADER_WHITESPACE = False`` all whitespace is
preserved. (#146)
- The old ``classExtensions`` extension mechanism (which was deprecated in
PyFITS 3.0) is removed outright. To our knowledge it was no longer used
anywhere. (r1309)
- Warning messages from PyFITS issued through the Python warnings API are now
output to stderr instead of stdout, as is the default. PyFITS no longer
modifies the default behavior of the warnings module with respect to which
stream it outputs to. (r1319)
- The ``checksum`` argument to ``pyfits.open()`` now accepts a value of
'remove', which causes any existing CHECKSUM/DATASUM keywords to be ignored,
and removed when the file is saved.
New Features
^^^^^^^^^^^^
- Added support for the proposed "FITS" extension HDU type. See
http://listmgr.cv.nrao.edu/pipermail/fitsbits/2002-April/001094.html. FITS
HDUs contain an entire FITS file embedded in their data section. `FitsHDU`
objects work like other HDU types in PyFITS. Their ``.data`` attribute
returns the raw data array. However, they have a special ``.hdulist``
attribute which processes the data as a FITS file and returns it as an
in-memory HDUList object. FitsHDU objects also support a
``FitsHDU.fromhdulist()`` classmethod which returns a new `FitsHDU` object
that embeds the supplied HDUList. (#80)
- Added a new ``.is_image`` attribute on HDU objects, which is True if the HDU
data is an 'image' as opposed to a table or something else. Here the
meaning of 'image' is fairly loose, and mostly just means a Primary or Image
extension HDU, or possibly a compressed image HDU (#71)
- Added an ``HDUList.fromstring`` classmethod which can parse a FITS file
already in memory and instantiate and ``HDUList`` object from it. This
could be useful for integrating PyFITS with other libraries that work on
FITS file, such as CFITSIO. It may also be useful in streaming
applications. The name is a slight misnomer, in that it actually accepts
any Python object that implements the buffer interface, which includes
``bytes``, ``bytearray``, ``memoryview``, ``numpy.ndarray``, etc. (#90)
- Added a new ``pyfits.diff`` module which contains facilities for comparing
FITS files. One can use the ``pyfits.diff.FITSDiff`` class to compare two
FITS files in their entirety. There is also a ``pyfits.diff.HeaderDiff``
class for just comparing two FITS headers, and other similar interfaces.
See the PyFITS Documentation for more details on this interface. The
``pyfits.diff`` module powers the new ``fitsdiff`` program installed with
PyFITS. After installing PyFITS, run ``fitsdiff --help`` for usage details.
- ``pyfits.open()`` now accepts a ``scale_back`` argument. If set to
``True``, this automatically scales the data using the original BZERO and
BSCALE parameters the file had when it was first opened, if any, as well as
the original BITPIX. For example, if the original BITPIX were 16, this
would be equivalent to calling ``hdu.scale('int16', 'old')`` just before
calling ``flush()`` or ``close()`` on the file. This option applies to all
HDUs in the file. (#120)
- ``pyfits.open()`` now accepts a ``save_backup`` argument. If set to
``True``, this automatically saves a backup of the original file before
flushing any changes to it (this of course only applies to update and append
mode). This may be especially useful when working with scaled image data.
(#121)
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Warnings from PyFITS are not output to stderr by default, instead of stdout
as it has been for some time. This is contrary to most users' expectations
and makes it more difficult for them to separate output from PyFITS from the
desired output for their scripts. (r1319)
Bug Fixes
^^^^^^^^^
- Fixed ``pyfits.tcreate()`` (now ``pyfits.tableload()``) to be more robust
when encountering blank lines in a column definition file (#14)
- Fixed a fairly rare crash that could occur in the handling of CONTINUE cards
when using Numpy 1.4 or lower (though 1.4 is the oldest version supported by
PyFITS). (r1330)
- Fixed ``_BaseHDU.fromstring`` to actually correctly instantiate an HDU
object from a string/buffer containing the header and data of that HDU.
This allowed for the implementation of ``HDUList.fromstring`` described
above. (#90)
- Fixed a rare corner case where, in some use cases, (mildly, recoverably)
malformatted float values in headers were not properly returned as floats.
(#137)
- Fixed a corollary to the previous bug where float values with a leading zero
before the decimal point had the leading zero unnecessarily removed when
saving changes to the file (eg. "0.001" would be written back as ".001" even
if no changes were otherwise made to the file). (#137)
- When opening a file containing CHECKSUM and/or DATASUM keywords in update
mode, the CHECKSUM/DATASUM are updated and preserved even if the file was
opened with checksum=False. This change in behavior prevents checksums from
being unintentionally removed. (#148)
- Fixed a bug where ``ImageHDU.scale(option='old')`` wasn't working at all--it
was not restoring the image to its original BSCALE and BZERO values. (#162)
- Fixed a bug when writing out files containing zero-width table columns,
where the TFIELDS keyword would be updated incorrectly, leaving the table
largely unreadable. This fix will be backported to the 3.0.x series in
version 3.0.10. (#174)
3.0.9 (2012-08-06)
------------------
This is a bug fix release for the 3.0.x series.
Bug Fixes
^^^^^^^^^
- Fixed ``Header.values()``/``Header.itervalues()`` and ``Header.items()``/
``Header.iteritems()`` to correctly return the different values for
duplicate keywords (particularly commentary keywords like HISTORY and
COMMENT). This makes the old Header implementation slightly more compatible
with the new implementation in PyFITS 3.1. (#127)
.. note::
This fix did not change the existing behavior from earlier PyFITS
versions where ``Header.keys()`` returns all keywords in the header with
duplicates removed. PyFITS 3.1 changes that behavior, so that
``Header.keys()`` includes duplicates.
- Fixed a bug where ``ImageHDU.scale(option='old')`` wasn't working at all--it
was not restoring the image to its original BSCALE and BZERO values. (#162)
- Fixed a bug where opening a file containing compressed image HDUs in
'update' mode and then immediately closing it without making any changes
caused the file to be rewritten unncessarily. (#167)
- Fixed two memory leaks that could occur when writing compressed image data,
or in some cases when opening files containing compressed image HDUs in
'update' mode. (#168)
3.0.8 (2012-06-04)
------------------
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Prior to this release, image data sections did not work with scaled
data--that is, images with non-trivial BSCALE and/or BZERO values.
Previously, in order to read such images in sections, it was necessary to
manually apply the BSCALE+BZERO to each section. It's worth noting that
sections *did* support pseudo-unsigned ints (flakily). This change just
extends that support for general BSCALE+BZERO values.
Bug Fixes
^^^^^^^^^
- Fixed a bug that prevented updates to values in boolean table columns from
being saved. This turned out to be a symptom of a deeper problem that could
prevent other table updates from being saved as well. (#139)
- Fixed a corner case in which a keyword comment ending with the string "END"
could, in some circumstances, cause headers (and the rest of the file after
that point) to be misread. (#142)
- Fixed support for scaled image data and psuedo-unsigned ints in image data
sections (``hdu.section``). Previously this was not supported at all. At
some point support was supposedly added, but it was buggy and incomplete.
Now the feature seems to work much better. (#143)
- Fixed the documentation to point out that image data sections *do* support
non-contiguous slices (and have for a long time). The documentation was
never updated to reflect this, and misinformed users that only contiguous
slices were supported, leading to some confusion. (#144)
- Fixed a bug where creating an ``HDUList`` object containing multiple PRIMARY
HDUs caused an infinite recursion when validating the object prior to
writing to a file. (#145)
- Fixed a rare but serious case where saving an update to a file that
previously had a CHECKSUM and/or DATASUM keyword, but removed the checksum
in saving, could cause the file to be slightly corrupted and unreadable.
(#147)
- Fixed problems with reading "non-standard" FITS files with primary headers
containing SIMPLE = F. PyFITS has never made many guarantees as to how such
files are handled. But it should at least be possible to read their
headers, and the data if possible. Saving changes to such a file should not
try to prepend an unwanted valid PRIMARY HDU. (#157)
- Fixed a bug where opening an image with ``disable_image_compression = True``
caused compression to be disabled for all subsequent ``pyfits.open()`` calls.
(r1651)
3.0.7 (2012-04-10)
------------------
Changes in Behavior
^^^^^^^^^^^^^^^^^^^
- Slices of GroupData objects now return new GroupData objects instead of
extended multi-row _Group objects. This is analogous to how PyFITS 3.0 fixed
FITS_rec slicing, and should have been fixed for GroupData at the same time.
The old behavior caused bugs where functions internal to Numpy expected that
slicing an ndarray would return a new ndarray. As this is a rare usecase
with a rare feature most users are unlikely to be affected by this change.
- The previously internal _Group object for representing individual group
records in a GroupData object are renamed Group and are now a public
interface. However, there's almost no good reason to create Group objects
directly, so it shouldn't be considered a "new feature".
- An annoyance from PyFITS 3.0.6 was fixed, where the value of the EXTEND
keyword was always being set to F if there are not actually any extension
HDUs. It was unnecessary to modify this value.
Bug Fixes
^^^^^^^^^
- Fixed GroupData objects to return new GroupData objects when sliced instead
of _Group record objects. See "Changes in behavior" above for more details.
- Fixed slicing of Group objects--previously it was not possible to slice
slice them at all.
- Made it possible to assign `np.bool_` objects as header values. (#123)
- Fixed overly strict handling of the EXTEND keyword; see "Changes in
behavior" above. (#124)
- Fixed many cases where an HDU's header would be marked as "modified" by
PyFITS and rewritten, even when no changes to the header are necessary.
(#125)
- Fixed a bug where the values of the PTYPEn keywords in a random groups HDU
were forced to be all lower-case when saving the file. (#130)
- Removed an unnecessary inline import in `ExtensionHDU.__setattr__` that was
causing some slowdown when opening files containing a large number of
extensions, plus a few other small (but not insignficant) performance
improvements thanks to Julian Taylor. (#133)
- Fixed a regression where header blocks containing invalid end-of-header
padding (i.e. null bytes instead of spaces) couldn't be parsed by PyFITS.
Such headers can be parsed again, but a warning is raised, as such headers
are not valid FITS. (#136)
- Fixed a memory leak where table data in random groups HDUs weren't being
garbage collected. (#138)
3.0.6 (2012-02-29)
------------------
Highlights
^^^^^^^^^^
The main reason for this release is to fix an issue that was introduced in
PyFITS 3.0.5 where merely opening a file containing scaled data (that is, with
non-trivial BSCALE and BZERO keywords) in 'update' mode would cause the data
to be automatically rescaled--possibly converting the data from ints to
floats--as soon as the file is closed, even if the application did not touch
the data. Now PyFITS will only rescale the data in an extension when the data
is actually accessed by the application. So opening a file in 'update' mode
in order to modify the header or append new extensions will not cause any
change to the data in existing extensions.
This release also fixes a few Windows-specific bugs found through more
extensive Windows testing, and other miscellaneous bugs.
Bug Fixes
^^^^^^^^^
- More accurate error messages when opening files containing invalid header
cards. (#109)
- Fixed a possible reference cycle/memory leak that was caught through more
extensive testing on Windows. (#112)
- Fixed 'ostream' mode to open the underlying file in 'wb' mode instead of 'w'
mode. (#112)
- Fixed a Windows-only issue where trying to save updates to a resized FITS
file could result in a crash due to there being open mmaps on that file.
(#112)
- Fixed a crash when trying to create a FITS table (i.e. with new_table())
from a Numpy array containing bool fields. (#113)
- Fixed a bug where manually initializing an ``HDUList`` with a list of of
HDUs wouldn't set the correct EXTEND keyword value on the primary HDU.
(#114)
- Fixed a crash that could occur when trying to deepcopy a Header in Python <
2.7. (#115)
- Fixed an issue where merely opening a scaled image in 'update' mode would
cause the data to be converted to floats when the file is closed. (#119)
3.0.5 (2012-01-30)
------------------
- Fixed a crash that could occur when accessing image sections of files
opened with memmap=True. (r1211)
- Fixed the inconsistency in the behavior of files opened in 'readonly' mode
when memmap=True vs. when memmap=False. In the latter case, although
changes to array data were not saved to disk, it was possible to update the
array data in memory. On the other hand with memmap=True, 'readonly' mode
prevented even in-memory modification to the data. This is what
'copyonwrite' mode was for, but difference in behavior was confusing. Now
'readonly' is equivalent to 'copyonwrite' when using memmap. If the old
behavior of denying changes to the array data is necessary, a new
'denywrite' mode may be used, though it is only applicable to files opened
with memmap. (r1275)
- Fixed an issue where files opened with memmap=True would return image data
as a raw numpy.memmap object, which can cause some unexpected
behaviors--instead memmap object is viewed as a numpy.ndarray. (r1285)
- Fixed an issue in Python 3 where a workaround for a bug in Numpy on Python 3
interacted badly with some other software, namely to vo.table package (and
possibly others). (r1320, r1337, and #110)
- Fixed buggy behavior in the handling of SIGINTs (i.e. Ctrl-C keyboard
interrupts) while flushing changes to a FITS file. PyFITS already prevented
SIGINTs from causing an incomplete flush, but did not clean up the signal
handlers properly afterwards, or reraise the keyboard interrupt once the
flush was complete. (r1321)
- Fixed a crash that could occur in Python 3 when opening files with checksum
checking enabled. (r1336)
- Fixed a small bug that could cause a crash in the `StreamingHDU` interface
when using Numpy below version 1.5.
- Fixed a crash that could occur when creating a new `CompImageHDU` from an
array of big-endian data. (#104)
- Fixed a crash when opening a file with extra zero padding at the end.
Though FITS files should not have such padding, it's not explictly forbidden
by the format either, and PyFITS shouldn't stumble over it. (#106)
- Fixed a major slowdown in opening tables containing large columns of string
values. (#111)
3.0.4 (2011-11-22)
------------------
- Fixed a crash when writing HCOMPRESS compressed images that could happen on
Python 2.5 and 2.6. (r1217)
- Fixed a crash when slicing an table in a file opened in 'readonly' mode with
memmap=True. (r1230)
- Writing changes to a file or writing to a new file verifies the output in
'fix' mode by default instead of 'exception'--that is, PyFITS will
automatically fix common FITS format errors rather than raising an
exception. (r1243)
- Fixed a bug where convenience functions such as getval() and getheader()
crashed when specifying just 'PRIMARY' as the extension to use (r1263).
- Fixed a bug that prevented passing keyword arguments (beyond the standard
data and header arguments) as positional arguments to the constructors of
extension HDU classes.
- Fixed some tests that were failing on Windows--in this case the tests
themselves failed to close some temp files and Windows refused to delete them
while there were still open handles on them. (r1295)
- Fixed an issue with floating point formatting in header values on Python 2.5
for Windows (and possibly other platforms). The exponent was zero-padded to
3 digits; although the FITS standard makes no specification on this, the
formatting is now normalized to always pad the exponent to two digits.
(r1295)
- Fixed a bug where long commentary cards (such as HISTORY and COMMENT) were
broken into multiple CONTINUE cards. However, commentary cards are not
expected to be found in CONTINUE cards. Instead these long cards are broken
into multiple commentary cards. (#97)
- GZIP/ZIP-compressed FITS files can be detected and opened regardless of
their filename extension. (#99)
- Fixed a serious bug where opening scaled images in 'update' mode and then
closing the file without touching the data would cause the file to be
corrupted. (#101)
3.0.3 (2011-10-05)
------------------
- Fixed several small bugs involving corner cases in record-valued keyword
cards (#70)
- In some cases HDU creation failed if the first keyword value in the header
was not a string value (#89)
- Fixed a crash when trying to compute the HDU checksum when the data array
contains an odd number of bytes (#91)
- Disabled an unnecessary warning that was displayed on opening compressed
HDUs with disable_image_compression = True (#92)
- Fixed a typo in code for handling HCOMPRESS compressed images.
3.0.2 (2011-09-23)
------------------
- The ``BinTableHDU.tcreate`` method and by extension the ``pyfits.tcreate``
function don't get tripped up by blank lines anymore (#14)
- The presence, value, and position of the EXTEND keyword in Primary HDUs is
verified when reading/writing a FITS file (#32)
- Improved documentation (in warning messages as well as in the handbook) that
PyFITS uses zero-based indexing (as one would expect for C/Python code, but
contrary to the PyFITS standard which was written with FORTRAN in mind)
(#68)
- Fixed a bug where updating a header card comment could cause the value to be
lost if it had not already been read from the card image string.
- Fixed a related bug where changes made directly to Card object in a header
(i.e. assigning directly to card.value or card.comment) would not propagate
when flushing changes to the file (#69) [Note: This and the bug above it
were originally reported as being fixed in version 3.0.1, but the fix was
never included in the release.]
- Improved file handling, particularly in Python 3 which had a few small file
I/O-related bugs (#76)
- Fixed a bug where updating a FITS file would sometimes cause it to lose its
original file permissions (#79)
- Fixed the handling of TDIMn keywords; 3.0 added support for them, but got
the axis order backards (they were treated as though they were row-major)
(#82)
- Fixed a crash when a FITS file containing scaled data is opened and
immediately written to a new file without explicitly viewing the data first
(#84)
- Fixed a bug where creating a table with columns named either 'names' or
'formats' resulted in an infinite recursion (#86)
3.0.1 (2011-09-12)
------------------
- Fixed a bug where updating a header card comment could cause the value to be
lost if it had not already been read from the card image string.
- Changed ``_TableBaseHDU.data`` so that if the data contain an empty table a
``FITS_rec`` object with zero rows is returned rather than ``None``.
- The ``.key`` attribute of ``RecordValuedKeywordCards`` now returns the full
keyword+field-specifier value, instead of just the plain keyword (#46)
- Fixed a related bug where changes made directly to Card object in a header
(i.e. assigning directly to card.value or card.comment) would not propagate
when flushing changes to the file (#69)
- Fixed a bug where writing a table with zero rows could fail in some cases
(#72)
- Miscellanous small bug fixes that were causing some tests to fail,
particularly on Python 3 (#74, #75)
- Fixed a bug where creating a table column from an array in non-native byte
order would not preserve the byte order, thus interpreting the column array
using the wrong byte order (#77)
3.0.0 (2011-08-23)
--------------------
- Contains major changes, bumping the version to 3.0
- Large amounts of refactoring and reorganization of the code; tried to
preserve public API backwards-compatibility with older versions (private API
has many changes and is not guaranteed to be backwards-compatible). There
are a few small public API changes to be aware of:
* The pyfits.rec module has been removed completely. If your version of
numpy does not have the numpy.core.records module it is too old to be used
with PyFITS.
* The ``Header.ascardlist()`` method is deprecated--use the ``.ascard``
attribute instead.
* ``Card`` instances have a new ``.cardimage`` attribute that should be used
rather than ``.ascardimage()``, which may become deprecated.
* The ``Card.fromstring()`` method is now a classmethod. It returns a new
``Card`` instance rather than modifying an existing instance.
* The ``req_cards()`` method on HDU instances has changed: The ``pos``
argument is not longer a string. It is either an integer value (meaning
the card's position must match that value) or it can be a function that
takes the card's position as it's argument, and returns True if the
position is valid. Likewise, the ``test`` argument no longer takes a
string, but instead a function that validates the card's value and returns
True or False.
* The ``get_coldefs()`` method of table HDUs is deprecated. Use the
``.columns`` attribute instead.
* The ``ColDefs.data`` attribute is deprecated--use ``ColDefs.columns``
instead (though in general you shouldn't mess with it directly--it might
become internal at some point).
* ``FITS_record`` objects take ``start`` and ``end`` as arguments instead of
``startColumn`` and ``endColumn`` (these are rarely created manually, so
it's unlikely that this change will affect anyone).
* ``BinTableHDU.tcreate()`` is now a classmethod, and returns a new
``BinTableHDU`` instance.
* Use ``ExtensionHDU`` and ``NonstandardExtHDU`` for making new extension HDU
classes. They are now public interfaces, wheres previously they were
private and prefixed with underscores.
* Possibly others--please report if you find any changes that cause
difficulties.
- Calls to deprecated functions will display a Deprecation warning. However,
in Python 2.7 and up Deprecation warnings are ignored by default, so run
Python with the `-Wd` option to see if you're using any deprecated
functions. If we get close to actually removing any functions, we might
make the Deprecation warnings display by default.
- Added basic Python 3 support
- Added support for multi-dimensional columns in tables as specified by the
TDIMn keywords (#47)
- Fixed a major memory leak that occurred when creating new tables with the
``new_table()`` function (#49)
be padded with zero-bytes) vs ASCII tables (where strings are padded with
spaces) (#15)
- Fixed a bug in which the case of Random Access Group parameters names was not
preserved when writing (#41)
- Added support for binary table fields with zero width (#42)
- Added support for wider integer types in ASCII tables; although this is non-
standard, some GEIS images require it (#45)
- Fixed a bug that caused the index_of() method of HDULists to crash when the
HDUList object is created from scratch (#48)
- Fixed the behavior of string padding in binary tables (where strings should
be padded with nulls instead of spaces)
- Fixed a rare issue that caused excessive memory usage when computing
checksums using a non-standard block size (see r818)
- Add support for forced uint data in image sections (#53)
- Fixed an issue where variable-length array columns were not extended when
creating a new table with more rows than the original (#54)
- Fixed tuple and list-based indexing of FITS_rec objects (#55)
- Fixed an issue where BZERO and BSCALE keywords were appended to headers in
the wrong location (#56)
- ``FITS_record`` objects (table rows) have full slicing support, including
stepping, etc. (#59)
- Fixed a bug where updating multiple files simultaneously (such as when
running parallel processes) could lead to a race condition with mktemp()
(#61)
- Fixed a bug where compressed image headers were not in the order expected by
the funpack utility (#62)
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Changes from 2.2.1 to 2.2.2 =========================== * The `copy_args` argument of `NumExpr` function has been brought back. This has been mainly necessary for compatibility with PyTables < 3.0, which I decided to continue to support. Fixed #115. * The `__nonzero__` method in `ExpressionNode` class has been commented out. This is also for compatibility with PyTables < 3.0. See #24 for details. * Fixed the type of some parameters in the C extension so that s390 architecture compiles. Fixes #116. Thank to Antonio Valentino for reporting and the patch. Changes from 2.2 to 2.2.1 ========================= * Fixes a secondary effect of "from numpy.testing import `*`", where division is imported now too, so only then necessary functions from there are imported now. Thanks to Christoph Gohlke for the patch. Changes from 2.1 to 2.2 ======================= * [LICENSE] Fixed a problem with the license of the numexpr/win32/pthread.{c,h} files emulating pthreads on Windows platforms. After persmission from the original authors is granted, these files adopt the MIT license and can be redistributed without problems. See issue #109 for details (https://code.google.com/p/numexpr/issues/detail?id=110). * [ENH] Improved the algorithm to decide the initial number of threads to be used. This was necessary because by default, numexpr was using a number of threads equal to the detected number of cores, and this can be just too much for moder systems where this number can be too high (and counterporductive for performance in many cases). Now, the 'NUMEXPR_NUM_THREADS' environment variable is honored, and in case this is not present, a maximum number of *8* threads are setup initially. The new algorithm is fully described in the Users Guide now in the note of 'General routines' section: https://code.google.com/p/numexpr/wiki/UsersGuide#General_routines. Closes #110. * [ENH] numexpr.test() returns `TestResult` instead of None now. Closes #111. * [FIX] Modulus with zero with integers no longer crashes the interpreter. It nows puts a zero in the result. Fixes #107. * [API CLEAN] Removed `copy_args` argument of `evaluate`. This should only be used by old versions of PyTables (< 3.0). * [DOC] Documented the `optimization` and `truediv` flags of `evaluate` in Users Guide (https://code.google.com/p/numexpr/wiki/UsersGuide). Changes from 2.0.1 to 2.1 =========================== * Dropped compatibility with Python < 2.6. * Improve compatibiity with Python 3: - switch from PyString to PyBytes API (requires Python >= 2.6). - fixed incompatibilities regarding the int/long API - use the Py_TYPE macro - use the PyVarObject_HEAD_INIT macro instead of PyObject_HEAD_INIT * Fixed several issues with different platforms not supporting multithreading or subprocess properly (see tickets #75 and #77). * Now, when trying to use pure Python boolean operators, 'and', 'or' and 'not', an error is issued suggesting that '&', '|' and '~' should be used instead (fixes #24). Changes from 2.0 to 2.0.1 ========================= * Added compatibility with Python 2.5 (2.4 is definitely not supported anymore). * `numexpr.evaluate` is fully documented now, in particular the new `out`, `order` and `casting` parameters. * Reduction operations are fully documented now. * Negative axis in reductions are not supported (they have never been actually), and a `ValueError` will be raised if they are used. Changes from 1.x series to 2.0 ============================== - Added support for the new iterator object in NumPy 1.6 and later. This allows for better performance with operations that implies broadcast operations, fortran-ordered or non-native byte orderings. Performance for other scenarios is preserved (except for very small arrays). - Division in numexpr is consistent now with Python/NumPy. Fixes #22 and #58. - Constants like "2." or "2.0" must be evaluated as float, not integer. Fixes #59. - `evaluate()` function has received a new parameter `out` for storing the result in already allocated arrays. This is very useful when dealing with large arrays, and a allocating new space for keeping the result is not acceptable. Closes #56. - Maximum number of threads raised from 256 to 4096. Machines with a higher number of cores will still be able to import numexpr, but limited to 4096 (which is an absurdly high number already).
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=== 2.9.4 / 2014-02-10 * Bug fixes * Improve proxy escaping from 2.9.2. Pull request #59 by Mislav Marohnić. === 2.9.3 / 2014-02-06 * Bug fixes * Fix breakage in 2.9.2 for users without proxies. Pull request #56 by Yoshihiro TAKAHARA (merged), #57 by ChuckLin, #58 by Kenny Meyer. === 2.9.2 / 2014-02-05 * Bug fixes * Special characters in proxy passwords are now handled correctly. Issue #48 by Mislav Marohnić. Pull request #54 by Juha Kajava === 2.9.1 / 2014-01-22 * Bug fixes * Added license to gemspec. Issue #47 by Benjamin Fleischer * Set Net::HTTP#keep_alive_timeout when supported by ruby. Pull request #53 by Dylan Thacker-Smith. * The backtrace is preserved for errors in #reset to help with debugging. Issue #41 by Andrew Cholakian.
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=== 2.9.4 / 2014-02-10 * Bug fixes * Improve proxy escaping from 2.9.2. Pull request #59 by Mislav Marohnić. === 2.9.3 / 2014-02-06 * Bug fixes * Fix breakage in 2.9.2 for users without proxies. Pull request #56 by Yoshihiro TAKAHARA (merged), #57 by ChuckLin, #58 by Kenny Meyer. === 2.9.2 / 2014-02-05 * Bug fixes * Special characters in proxy passwords are now handled correctly. Issue #48 by Mislav Marohnić. Pull request #54 by Juha Kajava === 2.9.1 / 2014-01-22 * Bug fixes * Added license to gemspec. Issue #47 by Benjamin Fleischer * Set Net::HTTP#keep_alive_timeout when supported by ruby. Pull request #53 by Dylan Thacker-Smith. * The backtrace is preserved for errors in #reset to help with debugging. Issue #41 by Andrew Cholakian.
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Feature request #44: Allow override of the From: field on forensic reports. Feature request #45: Log the host portion of ignored Authentication-Results fields at "debug" level. Feature request #56: Add "RequiredHeaders" setting to enforce syntax checks against a message and reject those that don't comply. Feature request #65: Add "ForensicReportsBcc". Fix bug #46: Charitable tweak to a couple of log messages. Fix bug #55: The "SoftwareHeader" setting wasn't being set properly. Fix bug #58: The "smtp.mailfrom" part of an Authentication-Results field might contain only a domain name. Fix bug #60: Default AuthservID to the name provided by the MTA, not the local host name, which is consistent with what OpenDKIM does. Merge request #2: Validate external recipients before adding them to report recipient lists. Record all DKIM results to the history file, rather than only passing results. BUILD: Fix bug #50: Check libbsd for strlcat() and strlcpy() so we don't make our own when we don't need to. CONTRIB: Fix bug #52: Update path to draft RFC in contrib/spec. CONTRIB: Fix bug #59: Allow database name, userid and password to be specified on the command line rather than hard-coding them. DOCS: Fix bug #48: Add a libopendmarc use overview page. DOCS: Fix bug #53: Add man page for opendmarc-importstats. REPORTS: Fix bug #51: Check status after every phase of SMTP when sending reports. REPORTS: Fix DKIM status importing. LIBOPENDMARC: Fix bug #68: Fix strict/relaxed checking logic when a public suffix list is available. LIBOPENDMARC: Fixed a bug where in some instances the fetch of the orgainizational domain could wrongly return the from domain. LIBOPENDMARC: Fix call to missing function.
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2014-07-02 version 0.5.9: * Support std::tr1 unordered containers by default (#51, #63, #68, #69) * Remove some warnings (#56) * Fix segmentation fault after malloc failures (#58, #59) * Fix alloc/dealloc mismatch (#52, #61) * Fix sample codes (#60, #64) * Support implicit conversion from integer to float/double (#54) * Improve documents (#45, #75, #82, #83) * Support CMake (#20, #87) * Remove Ruby dependencies in bootstrap (#86, #87) * Add FILE* buffer (#40) * Other bug fixes and refactoring: #39, #73, #77, #79, #80, #81, #84, #90
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1.8.0 ----- - Issue #90: Add six.moves.shlex_quote. - Issue #59: Add six.moves.intern. - Add six.urllib.parse.uses_(fragment|netloc|params|query|relative). - Issue #88: Fix add_metaclass when the class has __slots__ containing "__weakref__" or "__dict__". - Issue #89: Make six use absolute imports. - Issue #85: Always accept *updated* and *assigned* arguments for wraps(). - Issue #86: In reraise(), instantiate the exception if the second argument is None. - Pull request #45: Add six.moves.email_mime_nonmultipart. - Issue #81: Add six.urllib.request.splittag mapping. - Issue #80: Add six.urllib.request.splituser mapping.
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Add test target
Upstream changes:
2015-03-14 -- 1.3.6
* Class.slots raises NotImplementedError for old style classes.
Closes issue #67.
* Add a new option to AstroidManager, `optimize_ast`, which
controls if peephole optimizer should be enabled or not.
This prevents a regression, where the visit_binop method
wasn't called anymore with astroid 1.3.5, due to the differences
in the resulting AST. Closes issue #82.
2015-03-11 -- 1.3.5
* Add the ability to optimize small ast subtrees,
with the first use in the optimization of multiple
BinOp nodes. This removes recursivity in the rebuilder
when dealing with a lot of small strings joined by the
addition operator. Closes issue #59.
* Obtain the methods for the nose brain tip through an
unittest.TestCase instance. Closes Pylint issue #457.
* Fix a crash which occurred when a class was the ancestor
of itself. Closes issue #78.
* Improve the scope_lookup method for Classes regarding qualified
objects, with an attribute name exactly as one provided in the
class itself.
For example, a class containing an attribute 'first',
which was also an import and which had, as a base, a qualified name
or a Gettattr node, in the form 'module.first', then Pylint would
have inferred the `first` name as the function from the Class,
not the import. Closes Pylint issue #466.
* Implement the assigned_stmts operation for Starred nodes,
which was omitted when support for Python 3 was added in astroid.
Closes issue #36.
2015-01-17 -- 1.3.4
* Get the first element from the method list when obtaining
the functions from nose.tools.trivial. Closes Pylint issue #448.
2015-01-16 -- 1.3.3
* Restore file_stream to a property, but deprecate it in favour of
the newly added method Module.stream. By using a method instead of a
property, it will be easier to properly close the file right
after it is used, which will ensure that no file descriptors are
leaked. Until now, due to the fact that a module was cached,
it was not possible to close the file_stream anywhere.
file_stream will start emitting PendingDeprecationWarnings in
astroid 1.4, DeprecationWarnings in astroid 1.5 and it will
be finally removed in astroid 1.6.
* Add inference tips for 'tuple', 'list', 'dict' and 'set' builtins.
* Add brain definition for most string and unicode methods
* Changed the API for Class.slots. It returns None when the class
doesn't define any slots. Previously, for both the cases where
the class didn't have slots defined and when it had an empty list
of slots, Class.slots returned an empty list.
* Add a new method to Class nodes, 'mro', for obtaining the
the method resolution order of the class.
* Add brain tips for six.moves. Closes issue #63.
* Improve the detection for functions decorated with decorators
which returns static or class methods.
* .slots() can contain unicode strings on Python 2.
* Add inference tips for nose.tools.
2014-11-22 -- 1.3.2
* Fixed a crash with invalid subscript index.
* Implement proper base class semantics for Python 3, where
every class derives from object.
* Allow more fine-grained control over C extension loading
in the manager.
2014-11-21 -- 1.3.1
* Fixed a crash issue with the pytest brain module.
2014-11-20 -- 1.3.0
* Fix a maximum recursion error occured during the inference,
where statements with the same name weren't filtered properly.
Closes pylint issue #295.
* Check that EmptyNode has an underlying object in
EmptyNode.has_underlying_object.
* Simplify the understanding of enum members.
* Fix an infinite loop with decorator call chain inference,
where the decorator returns itself. Closes issue #50.
* Various speed improvements. Patch by Alex Munroe.
* Add pytest brain plugin. Patch by Robbie Coomber.
* Support for Python versions < 2.7 has been dropped, and the
source has been made compatible with Python 2 and 3. Running
2to3 on installation for Python 3 is not needed anymore.
* astroid now depends on six.
* modutils._module_file opens __init__.py in binary mode.
Closes issues #51 and #13.
* Only C extensions from trusted sources (the standard library)
are loaded into the examining Python process to build an AST
from the live module.
* Path names on case-insensitive filesystems are now properly
handled. This fixes the stdlib detection code on Windows.
* Metaclass-generating functions like six.with_metaclass
are now supported via some explicit detection code.
* astroid.register_module_extender has been added to generalize
the support for module extenders as used by many brain plugins.
* brain plugins can now register hooks to handle failed imports,
as done by the gobject-introspection plugin.
* The modules have been moved to a separate package directory,
`setup.py develop` now works correctly.
2014-08-24 -- 1.2.1
* Fix a crash occurred when inferring decorator call chain.
Closes issue #42.
* Set the parent of vararg and kwarg nodes when inferring them.
Closes issue #43.
* namedtuple inference knows about '_fields' attribute.
* enum members knows about the methods from the enum class.
* Name inference will lookup in the parent function
of the current scope, in case searching in the current scope
fails.
* Inference of the functional form of the enums takes into
consideration the various inputs that enums accepts.
* The inference engine handles binary operations (add, mul etc.)
between instances.
* Fix an infinite loop in the inference, by returning a copy
of instance attributes, when calling 'instance_attr'.
Closes issue #34 (patch by Emile Anclin).
* Don't crash when trying to infer unbound object.__new__ call.
Closes issue #11.
2014-07-25 -- 1.2.0
* Function nodes can detect decorator call chain and see if they are
decorated with builtin descriptors (`classmethod` and `staticmethod`).
* infer_call_result called on a subtype of the builtin type will now
return a new `Class` rather than an `Instance`.
* `Class.metaclass()` now handles module-level __metaclass__ declaration
on python 2, and no longer looks at the __metaclass__ class attribute on
python 3.
* Function nodes can detect if they are decorated with subclasses
of builtin descriptors when determining their type
(`classmethod` and `staticmethod`).
* Add `slots` method to `Class` nodes, for retrieving
the list of valid slots it defines.
* Expose function annotation to astroid: `Arguments` node
exposes 'varargannotation', 'kwargannotation' and 'annotations'
attributes, while `Function` node has the 'returns' attribute.
* Backported most of the logilab.common.modutils module there, as
most things there are for pylint/astroid only and we want to be
able to fix them without requiring a new logilab.common release
* Fix names grabed using wildcard import in "absolute import mode"
(ie with absolute_import activated from the __future__ or with
python 3). Fix pylint issue #58.
* Add support in pylint-brain for understanding enum classes.
2014-04-30 -- 1.1.1
* `Class.metaclass()` looks in ancestors when the current class
does not define explicitly a metaclass.
* Do not cache modules if a module with the same qname is already
known, and only return cached modules if both name and filepath
match. Fixes pylint Bitbucket issue #136.
2014-04-18 -- 1.1.0
* All class nodes are marked as new style classes for Py3k.
* Add a `metaclass` function to `Class` nodes to
retrieve their metaclass.
* Add a new YieldFrom node.
* Add support for inferring arguments to namedtuple invocations.
* Make sure that objects returned for namedtuple
inference have parents.
* Don't crash when inferring nodes from `with` clauses
with multiple context managers. Closes #18.
* Don't crash when a class has some __call__ method that is not
inferable. Closes #17.
* Unwrap instances found in `.ancestors()`, by using their _proxied
class.
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Add ALTERNATIVES file. v0.10.0: 2016.05.02 - New Action birthday: list birthdays, sorted by month and day - option -p, --pretty was renamed to -p, --parsable: So, the pretty formatted email or phone number table is the default now. Please adapt the configuration files of potential email and phone applications (e.g.: mutt email -p %s) v0.11.0: 2016.07.17 - Made khard python3 compatible (#59) - Enhanced read and write support for vcard versions 3.0 and 4.0 - user input parser: - Improved robustness and error handling - Fixed org attribute parsing (#57) - Support for private vcard extensions (#51) - New action birthdays (#64) - New options: --display to display contacts by first or last name (#66) --search-in-source-files to speed up program initialization (#75) --skip-unparsable to skip unparsable vcard files (#75) --strict-search to narrow the contact search to the name field - Added some aliases for program actions (#65) - Removed davcontroler module due to the python3 incompatibility (script moved into the misc folder) - Updated zsh completion function and khards example config file v0.11.1: 2016.07.31 - Workaround for the photo attribute parsing issue of vobject library 0.9.2 (#80) - setup.py: try to convert readme file into restructured text format (pypi requirement) and specify encoding explicitly (#83)
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Version 1.12.0 (29 Sep 2016) Daniel Stenberg (29 Sep 2016) - RELEASE-NOTES: 1.12.0 - [David Drysdale brought this change] ares-test-misc: test ares_create_query with escaped trailing dot - ares_create_query: avoid single-byte buffer overwrite ... when the name ends with an escaped dot. CVE-2016-5180 Bug: https://c-ares.haxx.se/adv_20160929.html - ares_library_initialized.3: added - make: bump CARES_VERSION_INFO for release David Drysdale (29 Sep 2016) - man: update ares_init_options.3 Daniel Stenberg (29 Sep 2016) - ares_library_init.3: corrected the ares_library_init_mem proto - README.md: remove space from link - README: link to the correct c-ares badge! Reported-by: David Hotham Fixes #63 - docs: minor formatting edits - ares_destroy.3: formatting polish - ares_init.3: split the init docs into two separate man pages - SECURITY: point to the vulnerabilities page now - RELEASE-NOTES: synced with daa7235b1a5 - ares_create_query.3: edit language Tried to make the man page more readable. David Drysdale (26 Sep 2016) - test: fix gMock to work with gcc >= 6.x Taken from: google/googletest#705 (comment) Daniel Stenberg (26 Sep 2016) - [Brad House brought this change] headers: remove checks for and defines of variable sizes ... they're not really used and by avoiding them in the ares_build.h output we make the public header less dependent on data sizes. David Drysdale (24 Sep 2016) - api: add ARES_OPT_NOROTATE optmask value Fix up a couple of problems with configuring whether c-ares rotates between different name servers between requests. Firstly, ares_save_options() returns (in *optmask) the value of (channel->optmask & ARES_OPT_ROTATE), which doesn't necessarily indicate whether the channel is or is not actually doing rotation. This can be confusing/incorrect if: - the channel was originally configured without ARES_OPT_ROTATE (so it appears that the channel is not rotating) - the /etc/resolv.conf file includes the 'rotate' option (so the channel is actually performing rotation). Secondly, it is not possible to reliably configure a channel to not-rotate; leaving off ARES_OPT_ROTATE is not enough, since a 'rotate' option in /etc/resolv.conf will turn it on again. Therefore: - add an ARES_OPT_NOROTATE optmask value to allow explicit configuration of no-rotate behaviour - in ares_save_options(), report the value of channel->rotate as exactly one of (optmask & ARES_OPT_ROTATE) or (optmask & ARES_OPT_NOROTATE). In terms of back-compatibility: - existing apps that set ARES_OPT_ROTATE will continue to rotate, and to have ARES_OPT_ROTATE reported back from ares_save_options() - existing apps that don't set ARES_OPT_ROTATE will continue to use local config/defaults to decide whether to rotate, and will now get ARES_OPT_ROTATE or ARES_OPT_NOROTATE reported back from ares_save_options() rather than 0. - ares_init_options: only propagate init failures from options Commit 46bb820be3a8 ("ares_init_options: don't lose init failure") changed init behaviour so that earlier errors in initialization weren't lost. In particular, if the user passes in specific options but they are not applied (e.g. because of an allocation failure), that failure needs to be reported back to the user; this also applies when duplicating a channel with ares_dup(). However, other initialization failures can be ignored and overridden -- in particular, if init_by_resolv_conf() or init_by_environment() fail, then falling back to default values is OK. So only preserve failures from the init_by_options() stage, not from all initialization stages. Fixes issue 60. - test: Force reinstall of libtool on OSX Travis build environment appears to have changed. - test: Add valgrind build variant - test: Add null pointer to gtest args GoogleTest assumes that there is a null pointer in argv[argc], so make it look like that. Without this change, tests run with command-line arguments get memory errors under valgrind/ASAN. Daniel Stenberg (21 Aug 2016) - AUTHOR: maybe gitgub isn't really an author =) - AUTHORS: added contributors from the git log - LICENSE.md: add a stand-alone license file Just the MIT license used in the top the source files moved out to a stand-alone file for easier reference and discovery. - README: added "CII best practices" badge - SECURITY.md: suggested "security process" for the project David Drysdale (17 Aug 2016) - test: Add Clang static analysis build to Travis Run scan-build over the library source code, but skip the tests. Needs a later Clang install in Travis - test: more info on how to run fuzz testing - test: make fuzzer driver code C not C++ - test: fuzzer mode for AFL's persistent mode When fuzzing with AFL, if the LLVM-based instrumentation is used (via the afl-clang-fast wrapper), then it is possible to have a single execution of the fuzzer program iterate multiple times over the fuzzing entrypoint (similar to libFuzzer's normal mode of execution) with different data. This is much (e.g. 10x) faster. Add code to support this, by checking whether __AFL_LOOP is defined at compile-time. Also, shift the code to effectively be C rather than C++. - test: simplify deps for fuzzer entrypoint No need to depend on the rest of the test code (ares-test.h) for the fuzzer entrypoint; this makes the entrypoint slightly simpler to build with LLVM's libFuzzer. Also shift the code to effectively be C rather than C++ - test: disable MinGW tests The test binary built in the MinGW build is failing for some reason. It works for me when I build locally, so I'm guessing it's down to some sort of AppVeyor environment issue. Disable for now. Daniel Stenberg (16 Aug 2016) - read_tcp_data: remove superfluous NULL check CID 56884 by Coverity. The pointer is already derefenced before this point so it can't be NULL here anyway. - web: http => https GitHub (20 Jul 2016) - [David Drysdale brought this change] Merge pull request #59 from fuze/master Update msvc_ver.inc for VS2015 Update 3 - [Chris Araman brought this change] Update msvc_ver.inc support Visual Studio 2015 Update 3 David Drysdale (2 May 2016) - Fix trailing comment for #endif Daniel Stenberg (30 Apr 2016) - email: use Gisle's "new" address David Drysdale (18 Apr 2016) - test: drop superfluous fuzz inputs Where there are multiple fuzz input files that only differ in the first two bytes (the query ID), just keep the first such file. svante karlsson (15 Apr 2016) - Update msvc_ver.inc support Visual Studio 2015 Update 2 David Drysdale (31 Mar 2016) - test: Run fuzzcheck.sh in Travis build - test: add fuzzing check script to tests Add a test script that runs the fuzzing command over the corpus of DNS packets. This doesn't actually do any fuzzing (it just runs them as inputs without generating any variations) but it does ensure that the fuzzing entrypoint is still working. - test: allow multiple files in aresfuzz command line If no arguments are specified, use stdin as input. Otherwise treat each argument as a filename and feed its contents to the fuzz entrypoint. - test: Add corpus of DNS packets For fuzz testing it is useful to start from a corpus of valid packets, so fill out the test/fuzzinput/ directory with a bunch of inputs. These packets were generated by temporarily modifying the c-ares process_answer() function to save off any incoming response messages. - test: Add utility to show DNS packet from file - [nordsturm brought this change] Fix nsort initialization Author: Alexander Drachevskiy http://c-ares.haxx.se/mail/c-ares-archive-2014-07/0004.shtml http://c-ares.haxx.se/mail/c-ares-archive-2014-07/0014.shtml - test: Check setting nsort=0 option is respected - test: Update fuzzing function prototype libFuzzer changed expected return type from void to int in LLVM 3.8. - Explicitly clear struct servent before use On a build where MSAN has been manually set up (which involves using an MSAN-instrumented version of the standard C++ library, see https://github.com/google/sanitizers/wiki/MemorySanitizerLibcxxHowTo) there's a warning about use of uninitialized memory here. It might be a false positive, but the fix is trivial so include it. - test: for AF_UNSPEC, return CNAME only for AAAA, but valid A record Also shuffle expected responses rsp6/rsp4 into the order they will occur. - [Chris Araman brought this change] msvc_ver.inc: support Visual Studio 2015 Update 1 - build: commonize MSVC version detection Remove the need to copy/paste version number mapping between Makefile.msvc and test/Makefile.msvc. - test: Use different name in live test - test: Only pass unused args to GoogleTest - ahost.c: add cast to fix C++ compile If ahost.c is force-compiled as C++ the missing cast from (void *) to (char **) is problematic. - ares_library_cleanup: reset ares_realloc too Otherwise a subsequent use of the library might use a previous incarnation's realloc() implementation. Daniel Stenberg (9 Mar 2016) - [Brad House brought this change] configure: check if tests can get built before enabled The current approach for disabling tests is not a good solution because it forces you to pass --disable-tests, rather than auto-detect if your system can support the tests in the first place. Many (most?) systems do not have C++11. This also causes issues when chain-building c-ares, the hosting system needs to be updated to support passing this additional flag if necessary, it doesn't seem reasonable to add this requirement which breaks compatibility. This change auto-detects if the system can build the tests and automatically disable them if it cannot. If you pass --enable-tests to configure and the system cannot build them either due to lack of system support, or because cross-compilation is being used, it will throw an appropriate error since the user indicated they really did want the tests. David Drysdale (3 Mar 2016) - [Viktor Szakats brought this change] Makefile.m32: add support for CROSSPREFIX - [Viktor Szakats brought this change] Makefile.m32: add support for extra flags Allow specification of CARES_{LD,C}FLAG_EXTRAS envvars for mingw - test: Build with MinGW on AppVeyor - test: avoid in6addr_* constants These aren't available on MinGW, so use explicit addresses instead. - test: add missing #includes for dns-proto.cc - [Gregor Jasny brought this change] Fix man page typos detected by Lintian Daniel Stenberg (19 Feb 2016) - configure: acknowledge --disable-tests Fixes #44 - AUTHORS: added contributors from the 1.11.0 release - bump: start working on the next version Version 1.11.0 (19 Feb 2016) Daniel Stenberg (19 Feb 2016) - RELEASE-NOTES: final edits for 1.11.0 David Drysdale (15 Feb 2016) - ares_dup.3: remove mention of nonexistent function ares_dup_options() doesn't exist, so don't document it. - test: skip repeated build steps Top-level buildconf/configure now triggers for the test/ subdir too, so don't need to do explicitly. - test: namespaces unavailable when cross-compiling Daniel Stenberg (13 Feb 2016) - configure: only run configure in test when NOT cross-compiling ... as the tests won't run cross-compiled anyway David Drysdale (13 Feb 2016) - test: prefer ON_CALL to EXPECT_CALL to reduce flakes For UDP tests, there's a chance of a retry. EXPECT_CALL only expects a single request to arrive at the server; ON_CALL allows for a UDP retry and repeats the same answer. Note that ON_CALL and EXPECT_CALL can't be mixed in the same test, and that tests that have a varied sequence of responses for the same repeated request still have to use EXPECT_CALL. Daniel Stenberg (13 Feb 2016) - configure: run configure in 'test' too Having the test dir completely stand-alone causes too many issues for users and devs. It still needs to be built specifically. - configure: build silently by default - buildconf: run test/buildconf too if present - test/configure: build silently by default - [Gregor Jasny brought this change] dist: Distribute README.md Closes #42 Version 1.11.0 (11 Feb 2016) Daniel Stenberg (11 Feb 2016) - Makefile.am: distribute the test dir too - RELEASE-NOTES: synced with 385582bd14b68a - [Nicolas \"Pixel\" Noble brought this change] ares_win32_init: make LoadLibrary work when using UNICODE too Closes #17 David Drysdale (11 Feb 2016) - Use "resolve" as synonym of "dns" in nsswitch.conf Modern Linux systems may have libnss_resolve from systemd as the resolver, which is then configured in /etc/nsswitch.conf with the "resolve" keyword rather than "dns". Fixes #33 - ares_set_socket_callback: make manpage match code The code in ares_process.c that invokes the socket creation/connection callback only checks for rc < 0, not for standard ares error codes. - Merge pull request #36 from AGWA-forks/master Add ares_set_socket_configure_callback() - test: Update init tests to match behaviour Unreadable config files are now treated the same way as absent config files. - [Fedor Indutny brought this change] Ignore `fopen` errors to use default values After 46bb820be3a83520e70e6c5f0c5133253fcd69cd `init_by_resolv_conf` errors are no longer swallowed in `ares_init_options`. This has exposed a previously unknown bug in `lookups` initialization code. If there is no lookup configuration in `resolv.conf`, `init_by_resolv_conf` will attempt to read it from other files available on the system. However, some of these files may have restricted permissions (like `600`), which will lead to `EACCESS` errno, which in turn is handled like a fatal error by `init_by_resolv_conf`. However, it sounds illogical that this error should be handled as a fatal. There is a `init_by_defaults` call that overrides `lookups` with default value, and certainly possible absence of lookup information is the reason why this function exists in a first place! I suggest handling any `fopen` errors as non-fatal ones, allowing to pick up the `lookups` value from different config files, or to pick up default value. Andrew Ayer (9 Feb 2016) - Document callback type in man page for ares_set_socket_callback - Add ares_set_socket_configure_callback() This function sets a callback that is invoked after the socket is created, but before the connection is established. This is an ideal time to customize various socket options. David Drysdale (9 Feb 2016) - test: ares_set_socket_callback failure behaviour - test: Check ares_parse_txt_reply_ext() entrypoint - [Fedor Indutny brought this change] txt: introduce `ares_parse_txt_reply_ext` Introduce `ares_txt_ext` structure with an extra `record_start` field, which indicates a start of a new TXT record, thus allowing to differentiate the chunks in the same record, from a chunks in a different record. Introduce a new API method: `ares_parse_txt_reply_ext` that works with this kind of struct. - doc: Update missed repo references - doc: Update docs on contributing - test: Run command line tools in Travis Do a quick execution of each of the command line tools in the continuous integration build, so that any (say) sanitizer failures show up. - acountry: drop inert test If ver_1 is true, then z0 and z1 must both be 'z', and so (z0 != 'z' && z1 != 'z') can never be true. CID 56879, pointed out by Coverity. - doc: update badge locations to master repo - test: Enable maintainer mode + debug in Travis - test: Add an iOS build target - test: Ignore SIGPIPE in tests - test: More initialization tests - test: Improve containerized test mechanism Aim is to ensure that code coverage information can escape the container. To do this: - Enter a new mount namespace too, so that we can... - Bind mount the expected source directory into the container - Share memory with the sub-process so coverage information is shared too. - test: Make contained tests easier to write - test: Add framework for containerized testing On Linux we can potentially use user and UTS namespaces to run a test in a pseudo-container with: - arbitrary filesystem (e.g. /etc/resolv.conf, /etc/nsswitch.conf, /etc/hosts) - arbitrary hostname/domainname. Include a first pass at the framework code to allow this, along with a first test case that uses the container. - test: Use a longer timeout for less flakiness Having occasional test failures from timeout before multiple queries can complete, so up the default timeout for the test from 100ms to 1500ms. - test: Make failure tests more robust Different platforms will do different numbers of allocations in the processing of a given API call; just check that the return code is either success or ENOMEM, and free off any returned state in the former case. Also cope with ECONNREFUSED as well as ENOTFOUND. - test: Get test code building under Windows - Initial nmake file based off library nmake file - Cast socket call arguments to (char *) - Use wrapper sclose() that maps to closesocket() or close() - Build a config.h indicating presence of headers - Conditionally include netdb.h - Remove unnecessary include of sys/socket.h - Force longer bitmask for allocation failure tracking - Call WSAStartup() / WSACleanup() in main() - Set TCP_NODELAY for mock server - Turn on tests in AppVeyor build - test: Disable tests that manipulate env on Windows - test: Move file lists into Makefile.inc In preparation for a Win32 build of the test suite. - test: Add a simple multi-server test Check rotate option does something - test: Allow for multiple mock servers - Update the MockServer to allow separate specification of UDP and TCP ports - Have an array of mock servers listening on consecutive sets of ports. - Rename Process(fd) to ProcessFD(fd) to avoid confusion. - Initialize channel by using the new ares_set_servers_ports() entrypoint, so multiple ports on the same loopback address can be used. - test: Update test for set/get_servers variants Ports are significant in the _ports_ variant functions, so update test to cope. - test: Make GetNameServers() utility function port-aware Also make it generally available. - test: more testing, including of internal static functions - test: more tests, especially fallback processing - Make mock server listen on UDP + TCP in parallel. - Test UDP->TCP fallback on truncation - Test EDNS->no-EDNS fallback - Test some environment init options - Test nonsense reply test: short response - test: more tests, particularly of initialization - test: Run mock tests over both TCP and UDP With the exception of a few tests that make use of the timed retry aspect of UDP. - test: Run mock tests over both IPv4 and IPv6 - test: Add more tests for edge cases - test: more nooks and crannies of pton functions - test: More tests for PTR parsing - test: Use of HOSTALIAS environment variable - test: Add RAII utility classes for testing - TempFile holds specific contents - EnvValue sets an environment variable - test: More search domain scenarios - test: Remove duplicate flags from Makefile.am - test: Make test code leak-free - test: More tests - test use of sortlist - test gethostbyname(AF_UNSPEC) - test: Test ares_gethostbyname_file() - test: Add more tests of ares_getnameinfo() - test: Tweak tests, add alloc failure test - test: Test init with options - test: More tests - ares_inet_net_pton() variants - ares_getsock() variants - test: Expose ProcessWork() function - test: More parsing tests Including: - Split each parse function test set out into separate files. - Add an allocation failure test for each parsing function. - Add error check test for each parsing function. - test: Add various additional tests - test: More tests Include tests of internal functions, based on the value of the CARES_SYMBOL_HIDING macro; need to configure the library with --disable-symbol-hiding to enable these tests. - test: Allow command line override of mock server port - test: Add README.md documentation - test: Temporarily avoid latest Python requests package Currently get error from Travis on this install step, and downgrading one version appears to fix the problem. "Could not find any downloads that satisfy the requirement pyOpenSSL>=0.13 (from requests[security])" - test: Add AppVeyor config file for Windows build - test: Add configuration for a Travis build Cover Linux & OSX on the container infrastructure, but install a later G++ to satisfy the tests' need for C++11. Use a build matrix to include a variety of build variants: - ASAN - UBSAN - LSAN - Coverage via coveralls.io test: invoke ASAN and coverage in Travis build Also shift to use explicit build matrix test: Use coveralls.io for coverage tracking test: Add a build with UBSAN Also expand and re-order the setting of environment variables for easier modification. test: Add LSAN build to Travis config - test: Add initial unit tests for c-ares library The tests are written in C++11, using the GoogleTest and GoogleMock frameworks. They have their own independent autoconf setup, so that users of the library need not have a C++ compiler just to get c-ares working (however, the test/configure.ac file does assume the use of a shared top-level m4/ directory). However, this autoconf setup has only been tested on Linux and OSX so far. Run with "./arestest", or "./arestest -v" to see extra debug info. The GoogleTest options for running specific tests are also available (e.g. "./arestest --gtest_filter=*Live*"). The tests are nowhere near complete yet (currently hitting around 60% coverage as reported by gcov), but they do include examples of a few different styles of testing: - There are live tests (ares-test-live.cc), which assume that the current machine has a valid DNS setup and connection to the internet; these tests issue queries for real domains but don't particularly check what gets returned. The tests will fail on an offline machine. - There a few mock tests (ares-test-mock.cc) that set up a fake DNS server and inject its port into the c-ares library configuration. These tests allow specific response messages to be crafted and injected, and so are likely to be used for many more tests in future. - To make this generation/injection easier, the dns-proto.h file includes C++ helper classes for building DNS packets. - Other library entrypoints that don't require network activity (e.g. ares_parse_*_reply) are tested directly. - There are few tests of library-internal functions that are not normally visible to API users (in ares-test-internal.cc). - A couple of the tests use a helper method of the test fixture to inject memory allocation failures, using the earlier change to the library to allow override of malloc/realloc/free. - There is also an entrypoint to allow Clang's libfuzzer to drive the packet parsing code in ares_parse_*_reply, together with a standalone wrapper for it (./aresfuzz) to allow use of afl-fuzz for further fuzz testing. - test: Add local copy of GoogleMock/GoogleTest 1.7.0 Don't check in gtest/m4 files, as they are unused and interfere with the top-level configure process. - doc: Show build badges in README.md Note that these URLs will need to be updated if/when the test branch gets pulled into the master repo/branch. - doc: Convert README to README.md Gives better display on GitHub - doc: Update in preparation for next release Assume 1.11.0 is next (as there are various API additions). Also add myself to AUTHORS. - build: Allow header compilation by Windows C++ compiler - build: Expose whether symbol hiding is on Adding the CARES_SYMBOL_HIDING definition allows the test suite to detect whether internal symbols are available or not. - build: Add autoconf macros for C++11 code using pthreads Pull in testing macros from the GNU autoconf archive to allow configure scripts to test for and setup use of a C++11 compiler (AX_CXX_COMPILE_STDCXX_11) and the pthreads library (AX_PTHREAD). Note that these macros are not used by the main library autoconf, just by the tests (which share the same m4/ directory). - build: Add a code coverage option Configure with: ./configure --enable-code-coverage Show coverage output with: make code-coverage-capture Built on m4/ax_code_coverage.m4 from the GNU autoconf archive to provide the macros to check for presence of gcov + lcov; upstream macro modified to: - Remove use of $(AM_DEFAULT_VERBOSITY) , as earlier versions of autoconf (such as the one used by default on Travis) do not have this. - Rather than automatically defining CODE_COVERAGE_RULES to be a set of makefile rules that use ifeq/endif (which is GNU make-specific), instead only define CODE_COVERAGE_RULES if coverages is turned on, and in that case don't use conditionals in the makefile. - api: Add entrypoints to allow use of per-server ports Add user-visible entrypoints ares_{get,set}_servers_ports(3), which take struct ares_addr_port_node rather than struct ares_addr_node. This structure includes a UDP and TCP port number; if this is set to zero, the channel-wide port values are used as before. Similarly, add a new ares_set_servers_ports_csv(3) entrypoint, which is analogous to ares_set_servers(3) except it doesn't ignore any specified port information; instead, any per-server specified port is used as both the UDP and TCP port for that server. The internal struct ares_addr is extended to hold the UDP/TCP ports, stored in network order, with the convention that a value of zero indicates that the channel-wide UDP/TCP port should be used. For the internal implementation of ares_dup(3), shift to use the _ports() version of the get/set functions, so port information is transferred correctly to the new channel. Update manpages, and add missing ares_set_servers_csv to the lists while we're at it - api: Add ares_set_sortlist(3) entrypoint Allow explicit configuration of the channel's sortlist, by specifying a string in the same format as the equivalent /etc/resolv.conf option. This allows library users to perform the same configuration that is available via /etc/resolv.conf, but without needing to change that file. - api: Allow injection of user-specified malloc/free functions Add a new ares_library_init_mem() initialization function for the library which allows the library user to specify their own malloc, realloc & free equivalents for use library-wide. Store these function pointers in library-wide global variables, defaulting to libc's malloc(), realloc() and free(). Change all calls to malloc, realloc and free to use the function pointer instead. Also ensure that ares_strdup() is always available (even if the local environment includes strdup(3)), and change the library code to always use it. Convert calls to calloc() to use ares_malloc() + memset - api: Add option to expose some internal functions Purely for testing, add --enable-expose-statics option to configure which converts some static internal functions to be externally visible. - api: Expose the ares_library_initialized() function - ahost: Allow repeated -s <domain> options This also removes a potential leak where later -s options would replace earlier ones without freeing the relevant string. - Mark unhittable lines Add comments for the benefit of the lcov tool, marking lines that cannot be hit. Typically these are fall-back protection arms that are already covered by earlier checks, and so it's not worth taking out the unhittable code (in case someone changes the code between the two places in future). - ares_set_servers_csv.3: make return type match code - bitncmp: update comment to match code behaviour - ares_striendstr: fix so non-NULL return can happen This looks to have been broken since it was first introduced in 2005 in commit aba0b775ea30 ("Added ares_getnameinfo which mimics the getnameinfo API") - config_sortlist: free any existing sortlist on (re)alloc failure If we get an allocation failure on 2nd or later entry in the sortlist, the code would return ENOMEM but still leave the initial entries allocated. Ensure that *sortlist is set to NULL whenever ENOMEM is returned. - ares_dup: clear new channel on failure If the attempt to transfer IPv6 servers from the old to the new channel fails, the previous code would still return a channel to the user even though an error return code was generated. This makes it likely that users would leak the channel, so explicitly clear the channel in this case. - ares_init_options: don't lose init failure If (say) init_by_options() fails, the subsequent call to init_by_defaults() was overwriting the return code with success. Still call init_by_defaults() regardless, but track its return value separately - ares_gethostbyname: don't leak valid-but-empty hostent If an AF_UNSPEC query gets a valid response to its AAAA query, but which has no IPv6 addresses in it, then the code chains on to a A record query. However, the hostent from the AAAA response was being leaked along the way (because it gets replaced before the follow-on end_hquery() invocation). - ares_parse_txt_reply: propagate errors from per-substring loop If we get an allocation failure when processing a particular substring in a TXT record, that failure is silently lost; fix that by propagating errors from the inner loop to the outer loop. - process_answer: fix things up correctly when removing EDNS option When a server rejects an EDNS-equipped request, we retry without the EDNS option. However, in TCP mode, the 2-byte length prefix was being calculated wrong -- it was built from the answer length rather than the length of the original request. Also, it is theoretically possible that the call to realloc() might change the data pointed to; to allow for this, qbuf also needs updating. (Both these fixes were actually included in a patchset sent on the mailing list in Oct 2012, but were included with other functional changes that didn't get merged: http://c-ares.haxx.se/mail/c-ares-archive-2012-10/0004.shtml) - ares__read_line: clear buf pointer on realloc failure - ares_expand_name: check for valid bits in label length The top two bits of the label length indicate whether this is a label length (00) or an index to a name elsewhere in the message (11). RFC1035 4.1.4 says that the other possible values for the top two bits (01, 10) are reserved for future use. Daniel Stenberg (23 Jan 2016) - [Gregor Jasny brought this change] Fix typos detected by lintian Closes #32 - [Gregor Jasny brought this change] Distribute all man pages - README.cares: s/I/Daniel ... and add a pointer to an existing version of the original area 1.1.1 package.a - read_tcp_data: don't try to use NULL pointer after malloc failure CID 56884, pointed out by Coverity. We really should make this function return an error code so that a malloc() failure can return back a major failure. - configure_socket: explicitly ignore return code CID 56889 in Coverity pointed out the return code from setsocknonblock() is ignored, and this added typecast to (void) makes it explicit. - ahost: check the select() return code Fixes CID 137189, pointed out by Coverity David Drysdale (18 Jan 2016) - Fix buildconf on platforms using glibtoolize Commit c49a87eea538 changed buildconf to only check for libtoolize, but missed a line - Don't exit loop early leaving uninitialized entries Update for commit affc63cba875d. The original patch from Gregor Jasny did not have the break statement; I incorrectly added it to prevent continuing the loop. However, the later entries in the array would then be left uninitialized, causing problems for later cleanup. So fix to match Gregor's original patch, with apologies. Daniel Stenberg (18 Jan 2016) - buildconf: remove check for libtool, it only requires libtoolize David Drysdale (17 Jan 2016) - [Gregor Jasny brought this change] Use libresolv to initialize cares on iPhone targets On iPhone targets like iOS, watchOS or tvOS the file /etc/resolv.conf cannot be used to configure cares. Instead the resolver library is queried for configuration values. CC: Yury Kirpichev <[email protected]> Daniel Stenberg (17 Jan 2016) - README: updated to new repo URL David Drysdale (14 Jan 2016) - [Lei Shi brought this change] Fixing slow DNS lookup issue This patch is fixing the dns lookup issue due to dummy dns information of a disconnected adapter(in my case is a bluetooth adapter). I changed the dns lookup policy to try GetNetworkParams first because the GetNetworkParams provides the most reliable dns information (lots of checks were done by system). I also filter out inoperable adapter in DNS_AdaptersAddresses in case GetNetworkParams fail. - Merge pull request #30 from p-push/vs-2015 Support Visual Studio 2015 Oleg Pudeyev (3 Jan 2016) - [Gisle Vanem brought this change] Support Visual Studio 2015 David Drysdale (11 Nov 2015) - [Andrew Andkjar brought this change] added another version case to Makefile.msvc nmake version 11.00.61030.0 resolves to CC_VERS_NUM = 110 - Merge pull request #26 from bitbouncer/vs-2013 added define for visual studio 2013 svante karlsson (25 Jun 2015) - added define for visual studio 2013 Jakub Hrozek (6 Nov 2014) - ares__read_line: free buf on realloc failure - Destroy options if ares_save_options fails It's possible that, if ares_save_options failed, the opts structure would contain some allocated memory. Calling ares_destroy_options in this case is safe, because ares_save_options zeroes out the memory initially. - [David Drysdale brought this change] Continue loop if space for hostname not large enough When attempting to build a search domain from the local hostname (used as a fallback when no other methods have given a search domain), the code doubles the buffer size on each loop iteration. However, the loop previously had a WHILE_FALSE terminator so the continue statement exited the loop rather than going round again. Daniel Stenberg (30 Oct 2014) - ares_getnameinfo.3: there is no ares_getaddrinfo David Drysdale (30 Sep 2014) - [Gregor Jasny brought this change] Prevent tmpbuf from overrunning Fix Coverity error CID 56886. Signed-off-by: Gregor Jasny <[email protected]> - [Gregor Jasny brought this change] Re-start loop if select fails Fix Coverity error CID 56882 Signed-off-by: Gregor Jasny <[email protected]> - [Gregor Jasny brought this change] Free temporary variable in error path Fix Coverity CID 56890 Signed-off-by: Gregor Jasny <[email protected]> - [Gregor Jasny brought this change] Fix integer shift overflow if both tcp_socket and udp_socket are set The problem occurs if at the start of the loop the sockindex is at the last valid ARES_GETSOCK_MAXNUM position. If then both udp_socket and tcp_socket are valid, sockindex gets incremented for UDP first and points one entry behind the array for the tcp block. So the fix is to check after every increment of sockindex if it is still valid. Fix Coverity error CID 56878 Signed-off-by: Gregor Jasny <[email protected]> - [Gregor Jasny brought this change] Null check before dereference Fix Coverity error CID 56880 Signed-off-by: Gregor Jasny <[email protected]> Jakub Hrozek (28 Jul 2014) - [Gisle Vanem brought this change] Comment in ares_ipv6.h David Drysdale (25 Jul 2014) - CONTRIBUTING: add file to indicate mailing list is preferred - Add -t u option to ahost Add an option to allow specification of the AF_UNSPEC address family. Jakub Hrozek (24 Jul 2014) - host_callback: Fall back to AF_INET on searching with AF_UNSPEC Previously, when an ares_gethostbyname() searched with AF_UNSPEC and the first AF_INET6 call only returned CNAMEs, the host_callback never retried AF_INET. This patch makes sure than on ARES_SUCCESS, the result of AF_INET6 is taken as authoritative only if the result contains some addresses. - [David Drysdale brought this change] Move memset call below platform-specific declarations A GitHub commenter [1] says that my recent change to ahost.c has problems compiling on Windows + C89 platforms. [1] c-ares/c-ares@ee22246507c9#commitcomment-6587616 - [David Drysdale brought this change] Update ahost man page to describe -s option. Commit ee22246507c9 added the -s <domain> option to the ahost command, but neglected to update the man page to describe it. Also fix typo in description of -t option. - ares_parse_soa_reply: Do not leak rr_name on allocation failure If ares_malloc_data failed, already allocated rr_name would go out of scope. - [David Drysdale brought this change] Don't override explicitly specified search domains Only set search domains from /etc/resolv.conf if there isn't a value already present in the channel. - [David Drysdale brought this change] Allow specification of search domain in ahost Add the "-s domain" command line option to override the search domains. Daniel Stenberg (12 May 2014) - Revert "ares_parse_aaaa_reply: fix leak when reply contains 1 alias and no address" This reverts commit 440110b303fdbfadb3ad53d30eeb98cc45d70451. - [Frederic Germain brought this change] ares_parse_aaaa_reply: fix leak when reply contains 1 alias and no address - [Doug Kwan brought this change] ares_build.h: fix building on 64-bit powerpc There are two issues. 1. gcc actually does not use __ppc__ and __ppc64__ but __PPC__ and __PPC64__. The tests of __ILP32__ and __LP64__ are sufficient for gcc. 2. clang defines __GNU__ and defines both __ppc64__ and __ppc__ when targeting ppc64. This makes CARES_SIZEOF_LONG to be 4 on a ppc64 system when building with clang. My patch is two change the order of the checks so that we check the 64-bit case first. - refresh: updated now with automake 1.14 - [David Drysdale brought this change] single_domain: Invalid memory access for empty string input We noticed a small buglet in ares_search() when it gets an empty string as input -- the single_domain() utility function in ares_search.c accesses invalid memory (before the start of the string). Guenter Knauf (31 Aug 2013) - Fixed warning 'type specifier missing'. Daniel Stenberg (30 Aug 2013) - [Tor Arntsen brought this change] ares_rules.h: CARES_SIZEOF_LONG doesn't exist anymore, don't test for it It was removed in f19387dd72432 - nowarn: use <limits.h> instead of configure for size of long This makes the header file much more multi-arch friendly and can be used as-is with both 32 bit and 64 bit builds. - timeoffset: made static and private ares__timeoffset() was only used once within this single source file - timeadd: make static ares__timeadd() was only ever used from within the same source Yang Tse (18 Jul 2013) - xc-am-iface.m4: comments refinement - configure: fix 'subdir-objects' distclean related issue See XC_AMEND_DISTCLEAN comments for details. - configure: automake 1.14 compatibility tweak (use XC_AUTOMAKE) - xc-am-iface.m4: provide XC_AUTOMAKE macro Daniel Stenberg (12 May 2013) - gitignore: ignore all ares_*pdf but also CHANGES.dist - bump: start working towards 1.10.1
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2.1.0 / 2017-01-01 Major Enhancements * Fix breaking changes in LSI api. Displays errors instead of raising where possible. #87 2.0.5 / 2016-12-30 - removed due to breaking change, and no longer available Major Enhancements * Stopwords get encoded to utf8 (#83) * Fix searching issues where no document is added to lsi (#77) * Added method to add custom path to user-created stopword directory (#73) Minor Enhancements * Test newer rubies (#85) * Fixed errors in README (#68, #79, #80) * Added an option to the bayesian classifier to disable word stemming (#61) * Added missing parens and renamed some variables (#59)
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Changelog: Build and translation fixes [TritonDataCenter#58, TritonDataCenter#59]
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After running pkgin in apache-tomcat-7.0.35 on a fresh sdc:sdc:base64:13.1.0 (image 9eac5c0c-a941-11e2-a7dc-57a6b041988f) in Joyent Compute Service I cannot start Tomcat.
I am using http://pkgsrc.joyent.com/packages/SmartOS/2013Q1/x86_64/All.
It appears to be missing most of the install content:
The install appear to be broken by a syntax error on line 1555 in +INSTALL (excerpt shows lines 1547 to 1555):
Here is /var/db/pkgin/pkg_install-err.log
Here is the install transcript:
The text was updated successfully, but these errors were encountered: