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Removes the HD prefix from java C99 calls #3149

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merged 1 commit into from
Jun 19, 2023
Merged

Removes the HD prefix from java C99 calls #3149

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14 changes: 7 additions & 7 deletions java/src/jni/exceptionImp.c
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Original file line number Diff line number Diff line change
Expand Up @@ -73,17 +73,17 @@ typedef struct H5E_num_t {
CHECK_JNI_EXCEPTION(ENVONLY, JNI_FALSE); \
\
if (NULL == (jm = ENVPTR->GetMethodID(ENVONLY, jc, "<init>", "(Ljava/lang/String;)V"))) { \
HDprintf("THROWEXCEPTION FATAL ERROR: GetMethodID failed\n"); \
printf("THROWEXCEPTION FATAL ERROR: GetMethodID failed\n"); \
CHECK_JNI_EXCEPTION(ENVONLY, JNI_FALSE); \
} \
\
if (NULL == (ex = ENVPTR->NewObjectA(ENVONLY, jc, jm, (jvalue *)(args)))) { \
HDprintf("THROWEXCEPTION FATAL ERROR: Class %s: Creation failed\n", (className)); \
printf("THROWEXCEPTION FATAL ERROR: Class %s: Creation failed\n", (className)); \
CHECK_JNI_EXCEPTION(ENVONLY, JNI_FALSE); \
} \
\
if (ENVPTR->Throw(ENVONLY, (jthrowable)ex) < 0) { \
HDprintf("THROWEXCEPTION FATAL ERROR: Class %s: Throw failed\n", (className)); \
printf("THROWEXCEPTION FATAL ERROR: Class %s: Throw failed\n", (className)); \
CHECK_JNI_EXCEPTION(ENVONLY, JNI_FALSE); \
} \
}
Expand Down Expand Up @@ -168,9 +168,9 @@ Java_hdf_hdf5lib_exceptions_HDF5LibraryException_printStackTrace0(JNIEnv *env, j
else {
PIN_JAVA_STRING(ENVONLY, file_name, file, NULL, "printStackTrace0: file name not pinned");

if ((stream = HDfopen(file, "a+"))) {
if ((stream = fopen(file, "a+"))) {
H5Eprint2(H5E_DEFAULT, stream);
HDfclose(stream);
fclose(stream);
}
}

Expand Down Expand Up @@ -403,7 +403,7 @@ h5libraryError(JNIEnv *env)
goto done;

if (msg_size > 0) {
if (NULL == (msg_str = (char *)HDcalloc((size_t)msg_size + 1, sizeof(char))))
if (NULL == (msg_str = (char *)calloc((size_t)msg_size + 1, sizeof(char))))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "h5libraryerror: failed to allocate buffer for error message");

if ((msg_size = H5Eget_msg(min_num, &error_msg_type, msg_str, (size_t)msg_size + 1)) < 0)
Expand All @@ -428,7 +428,7 @@ h5libraryError(JNIEnv *env)

done:
if (msg_str)
HDfree(msg_str);
free(msg_str);

return retVal;
} /* end h5libraryError() */
Expand Down
80 changes: 40 additions & 40 deletions java/src/jni/h5aImp.c
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Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -181,7 +181,7 @@ Java_hdf_hdf5lib_H5_H5Aread(JNIEnv *env, jclass clss, jlong attr_id, jlong mem_t
if (!(typeSize = H5Tget_size(mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (readBuf = HDcalloc((size_t)vl_array_len, typeSize)))
if (NULL == (readBuf = calloc((size_t)vl_array_len, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aread: failed to allocate raw VL read buffer");
}
else {
Expand Down Expand Up @@ -218,7 +218,7 @@ Java_hdf_hdf5lib_H5_H5Aread(JNIEnv *env, jclass clss, jlong attr_id, jlong mem_t
}

if (vl_data_class) {
HDfree(readBuf);
free(readBuf);
}
else {
if (isCriticalPinning) {
Expand Down Expand Up @@ -270,7 +270,7 @@ Java_hdf_hdf5lib_H5_H5Awrite(JNIEnv *env, jclass clss, jlong attr_id, jlong mem_
if (!(typeSize = H5Tget_size(mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (writeBuf = HDcalloc((size_t)vl_array_len, typeSize)))
if (NULL == (writeBuf = calloc((size_t)vl_array_len, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Awrite: failed to allocate raw VL write buffer");
}
else {
Expand Down Expand Up @@ -304,7 +304,7 @@ Java_hdf_hdf5lib_H5_H5Awrite(JNIEnv *env, jclass clss, jlong attr_id, jlong mem_
}

if (vl_data_class) {
HDfree(writeBuf);
free(writeBuf);
}
else {
if (isCriticalPinning) {
Expand Down Expand Up @@ -993,17 +993,17 @@ Java_hdf_hdf5lib_H5_H5Aread_1string(JNIEnv *env, jclass clss, jlong attr_id, jlo
if (!(str_len = H5Tget_size((hid_t)mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (cstr = (char *)HDmalloc(str_len + 1)))
if (NULL == (cstr = (char *)malloc(str_len + 1)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aread_string: memory allocation failed");

if (NULL == (c_buf = (char *)HDmalloc((size_t)n * str_len)))
if (NULL == (c_buf = (char *)malloc((size_t)n * str_len)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aread_string: memory allocation failed");

if ((status = H5Aread((hid_t)attr_id, (hid_t)mem_type_id, c_buf)) < 0)
H5_LIBRARY_ERROR(ENVONLY);

for (i = 0, pos = 0; i < n; i++) {
HDmemcpy(cstr, c_buf + pos, str_len);
memcpy(cstr, c_buf + pos, str_len);
cstr[str_len] = '\0';

if (NULL == (jstr = ENVPTR->NewStringUTF(ENVONLY, cstr))) {
Expand All @@ -1022,9 +1022,9 @@ Java_hdf_hdf5lib_H5_H5Aread_1string(JNIEnv *env, jclass clss, jlong attr_id, jlo

done:
if (c_buf)
HDfree(c_buf);
free(c_buf);
if (cstr)
HDfree(cstr);
free(cstr);

return (jint)status;
} /* end Java_hdf_hdf5lib_H5_H5Aread_1string */
Expand Down Expand Up @@ -1058,7 +1058,7 @@ Java_hdf_hdf5lib_H5_H5Awrite_1string(JNIEnv *env, jclass clss, jlong attr_id, jl
if (!(str_len = H5Tget_size((hid_t)mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (c_buf = (char *)HDmalloc((size_t)n * str_len)))
if (NULL == (c_buf = (char *)malloc((size_t)n * str_len)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Awrite_string: memory allocation failed");

for (i = 0; i < (size_t)n; i++) {
Expand All @@ -1068,7 +1068,7 @@ Java_hdf_hdf5lib_H5_H5Awrite_1string(JNIEnv *env, jclass clss, jlong attr_id, jl
/*
* If the string object was NULL, skip it.
*/
HDmemset(&c_buf[i * str_len], 0, str_len);
memset(&c_buf[i * str_len], 0, str_len);
continue;
}

Expand All @@ -1079,7 +1079,7 @@ Java_hdf_hdf5lib_H5_H5Awrite_1string(JNIEnv *env, jclass clss, jlong attr_id, jl

PIN_JAVA_STRING(ENVONLY, obj, utf8, NULL, "H5Awrite_string: string not pinned");

HDstrncpy(&c_buf[i * str_len], utf8, str_len);
strncpy(&c_buf[i * str_len], utf8, str_len);

UNPIN_JAVA_STRING(ENVONLY, obj, utf8);
utf8 = NULL;
Expand All @@ -1094,7 +1094,7 @@ Java_hdf_hdf5lib_H5_H5Awrite_1string(JNIEnv *env, jclass clss, jlong attr_id, jl
if (utf8)
UNPIN_JAVA_STRING(ENVONLY, obj, utf8);
if (c_buf)
HDfree(c_buf);
free(c_buf);

return (jint)status;
} /* end Java_hdf_hdf5lib_H5_H5Awrite_1string */
Expand Down Expand Up @@ -1133,7 +1133,7 @@ Java_hdf_hdf5lib_H5_H5AreadVL(JNIEnv *env, jclass clss, jlong attr_id, jlong mem
if (!(typeSize = H5Tget_size(mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (readBuf = HDcalloc((size_t)vl_array_len, typeSize)))
if (NULL == (readBuf = calloc((size_t)vl_array_len, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aread: failed to allocate raw VL read buffer");

if ((status = H5Aread((hid_t)attr_id, (hid_t)mem_type_id, (void *)readBuf)) < 0)
Expand All @@ -1157,9 +1157,9 @@ Java_hdf_hdf5lib_H5_H5AreadVL(JNIEnv *env, jclass clss, jlong attr_id, jlong mem
}
if (is_variable) {
for (size_t i = 0; i < (size_t)vl_array_len; i++)
HDfree(((char **)readBuf)[i]);
free(((char **)readBuf)[i]);
}
HDfree(readBuf);
free(readBuf);
}

return (jint)status;
Expand Down Expand Up @@ -1202,7 +1202,7 @@ Java_hdf_hdf5lib_H5_H5AwriteVL(JNIEnv *env, jclass clss, jlong attr_id, jlong me
if (!(typeSize = H5Tget_size(mem_type_id)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (writeBuf = HDcalloc((size_t)vl_array_len, typeSize)))
if (NULL == (writeBuf = calloc((size_t)vl_array_len, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Awrite: failed to allocate raw VL write buffer");

if ((type_class = H5Tget_class((hid_t)mem_type_id)) < 0)
Expand All @@ -1224,10 +1224,10 @@ Java_hdf_hdf5lib_H5_H5AwriteVL(JNIEnv *env, jclass clss, jlong attr_id, jlong me
}
if (is_variable) {
for (size_t i = 0; i < (size_t)vl_array_len; i++)
HDfree(((char **)writeBuf)[i]);
free(((char **)writeBuf)[i]);
}

HDfree(writeBuf);
free(writeBuf);
}

return (jint)status;
Expand Down Expand Up @@ -1323,7 +1323,7 @@ H5AreadVL_str(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
H5_BAD_ARGUMENT_ERROR(ENVONLY, "H5AreadVL_str: buf length < 0");
}

if (NULL == (strs = (char **)HDcalloc((size_t)n, sizeof(char *))))
if (NULL == (strs = (char **)calloc((size_t)n, sizeof(char *))))
H5_OUT_OF_MEMORY_ERROR(ENVONLY,
"H5AreadVL_str: failed to allocate variable length string read buffer");

Expand Down Expand Up @@ -1356,7 +1356,7 @@ H5AreadVL_str(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
H5free_memory(strs[i]);
}

HDfree(strs);
free(strs);
}

return status;
Expand All @@ -1381,7 +1381,7 @@ H5AreadVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
void *readBuf = NULL;
herr_t status = FAIL;

HDmemset(&h5str, 0, sizeof(h5str_t));
memset(&h5str, 0, sizeof(h5str_t));

/* Get size of string array */
if ((n = ENVPTR->GetArrayLength(ENVONLY, buf)) < 0) {
Expand All @@ -1396,7 +1396,7 @@ H5AreadVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
if (!(typeSize = H5Tget_size(tid)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (readBuf = HDcalloc((size_t)n, typeSize)))
if (NULL == (readBuf = calloc((size_t)n, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5AreadVL_asstr: failed to allocate read buffer");

if ((status = H5Aread(aid, tid, readBuf)) < 0)
Expand Down Expand Up @@ -1429,7 +1429,7 @@ H5AreadVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
h5str_free(&h5str);
if (readBuf) {
H5Treclaim(tid, sid, H5P_DEFAULT, readBuf);
HDfree(readBuf);
free(readBuf);
}
if (sid >= 0)
H5Sclose(sid);
Expand Down Expand Up @@ -1528,7 +1528,7 @@ H5AwriteVL_str(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
H5_BAD_ARGUMENT_ERROR(ENVONLY, "H5AwriteVL_str: buf length < 0");
}

if (NULL == (writeBuf = (char **)HDcalloc((size_t)size + 1, sizeof(char *))))
if (NULL == (writeBuf = (char **)calloc((size_t)size + 1, sizeof(char *))))
H5_OUT_OF_MEMORY_ERROR(ENVONLY,
"H5AwriteVL_str: failed to allocate variable length string write buffer");

Expand All @@ -1550,10 +1550,10 @@ H5AwriteVL_str(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)

PIN_JAVA_STRING(ENVONLY, obj, utf8, NULL, "H5AwriteVL_str: string not pinned");

if (NULL == (writeBuf[i] = (char *)HDmalloc((size_t)length + 1)))
if (NULL == (writeBuf[i] = (char *)malloc((size_t)length + 1)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5AwriteVL_str: failed to allocate string buffer");

HDstrncpy(writeBuf[i], utf8, (size_t)length + 1);
strncpy(writeBuf[i], utf8, (size_t)length + 1);
writeBuf[i][length] = '\0';

UNPIN_JAVA_STRING(ENVONLY, obj, utf8);
Expand All @@ -1571,10 +1571,10 @@ H5AwriteVL_str(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
if (writeBuf) {
for (i = 0; i < size; i++) {
if (writeBuf[i])
HDfree(writeBuf[i]);
free(writeBuf[i]);
}

HDfree(writeBuf);
free(writeBuf);
}

return status;
Expand Down Expand Up @@ -1610,7 +1610,7 @@ H5AwriteVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
if (!(typeSize = H5Tget_size(tid)))
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (writeBuf = HDcalloc((size_t)n, typeSize)))
if (NULL == (writeBuf = calloc((size_t)n, typeSize)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5AwriteVL_asstr: failed to allocate write buffer");

/*
Expand All @@ -1626,7 +1626,7 @@ H5AwriteVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
/*
* If the string object was NULL, skip it.
*/
HDmemset(&(((char *)writeBuf)[i * typeSize]), 0, typeSize);
memset(&(((char *)writeBuf)[i * typeSize]), 0, typeSize);
continue;
}

Expand All @@ -1646,7 +1646,7 @@ H5AwriteVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
if (!h5str_convert(ENVONLY, &utf8_copy, aid, tid, &(((char *)writeBuf)[i * typeSize]), 0))
CHECK_JNI_EXCEPTION(ENVONLY, JNI_FALSE);

HDfree(utf8_copy);
free(utf8_copy);

UNPIN_JAVA_STRING(ENVONLY, jstr, utf8);
utf8 = NULL;
Expand All @@ -1662,7 +1662,7 @@ H5AwriteVL_asstr(JNIEnv *env, hid_t aid, hid_t tid, jobjectArray buf)
UNPIN_JAVA_STRING(ENVONLY, jstr, utf8);
if (writeBuf) {
H5Treclaim(tid, sid, H5P_DEFAULT, writeBuf);
HDfree(writeBuf);
free(writeBuf);
}
if (sid >= 0)
H5Sclose(sid);
Expand All @@ -1687,14 +1687,14 @@ Java_hdf_hdf5lib_H5_H5Aread_1reg_1ref(JNIEnv *env, jclass clss, jlong attr_id, j

UNUSED(clss);

HDmemset(&h5str, 0, sizeof(h5str_t));
memset(&h5str, 0, sizeof(h5str_t));

if ((n = ENVPTR->GetArrayLength(ENVONLY, buf)) < 0) {
CHECK_JNI_EXCEPTION(ENVONLY, JNI_TRUE);
H5_BAD_ARGUMENT_ERROR(ENVONLY, "H5Aread_reg_ref: buf length < 0");
}

if (NULL == (ref_data = (H5R_ref_t *)HDcalloc(1, (size_t)n * sizeof(H5R_ref_t))))
if (NULL == (ref_data = (H5R_ref_t *)calloc(1, (size_t)n * sizeof(H5R_ref_t))))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aread_reg_ref: failed to allocate read buffer");

if ((status = H5Aread((hid_t)attr_id, (hid_t)mem_type_id, ref_data)) < 0)
Expand Down Expand Up @@ -1724,7 +1724,7 @@ Java_hdf_hdf5lib_H5_H5Aread_1reg_1ref(JNIEnv *env, jclass clss, jlong attr_id, j
if (h5str.s)
h5str_free(&h5str);
if (ref_data)
HDfree(ref_data);
free(ref_data);

return (jint)status;
} /* end Java_hdf_hdf5lib_H5_H5Aread_1reg_1ref */
Expand Down Expand Up @@ -1784,7 +1784,7 @@ Java_hdf_hdf5lib_H5_H5Aget_1name(JNIEnv *env, jclass clss, jlong attr_id)
if ((buf_size = H5Aget_name((hid_t)attr_id, 0, NULL)) < 0)
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (attrName = (char *)HDmalloc(sizeof(char) * (size_t)buf_size + 1)))
if (NULL == (attrName = (char *)malloc(sizeof(char) * (size_t)buf_size + 1)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aget_name: failed to allocate attribute name buffer");

if (H5Aget_name((hid_t)attr_id, (size_t)buf_size + 1, attrName) < 0)
Expand All @@ -1796,7 +1796,7 @@ Java_hdf_hdf5lib_H5_H5Aget_1name(JNIEnv *env, jclass clss, jlong attr_id)

done:
if (attrName)
HDfree(attrName);
free(attrName);

return str;
} /* end Java_hdf_hdf5lib_H5_H5Aget_1name */
Expand Down Expand Up @@ -2140,7 +2140,7 @@ Java_hdf_hdf5lib_H5_H5Aget_1name_1by_1idx(JNIEnv *env, jclass clss, jlong loc_id
(hsize_t)n, (char *)NULL, (size_t)0, (hid_t)lapl_id)) < 0)
H5_LIBRARY_ERROR(ENVONLY);

if (NULL == (attrName = (char *)HDmalloc(sizeof(char) * (size_t)status_size + 1)))
if (NULL == (attrName = (char *)malloc(sizeof(char) * (size_t)status_size + 1)))
H5_OUT_OF_MEMORY_ERROR(ENVONLY, "H5Aget_name_by_idx: failed to allocate buffer for attribute name");

if ((H5Aget_name_by_idx((hid_t)loc_id, objName, (H5_index_t)idx_type, (H5_iter_order_t)order, (hsize_t)n,
Expand All @@ -2153,7 +2153,7 @@ Java_hdf_hdf5lib_H5_H5Aget_1name_1by_1idx(JNIEnv *env, jclass clss, jlong loc_id

done:
if (attrName)
HDfree(attrName);
free(attrName);
if (objName)
UNPIN_JAVA_STRING(ENVONLY, obj_name, objName);

Expand Down
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