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I have been trying to get my .nd2 images in spacetx format, but since I have many FOVs ~2TB in size across 12 rounds on an individual FOV basis (i.e. sect1_Time00000_Point0007_ChannelL-750,DAPI,L-488_Seq0007.nd2), I really struggled to load them with the existing starfish tutorials without having to split them tediously into separate DAPI and FISH channels.
I was hoping the spacetxx-writer would help, and from the looks of it, it built without issues using docker. I did not get an error message. The last few lines of the build were:
When trying to run spacetx-writer, I get the following error: zsh: command not found: spacetx-writer
I am not certain if something went wrong with the build, or what I am doing wrong. I followed the usage instructions of the simple example with my filenames, but find it a little hard to trouble shoot.
I am running this on a Mac OsX Ventura 13.3.1 (M1 Max, 32GB)
The text was updated successfully, but these errors were encountered:
I have been trying to get my .nd2 images in spacetx format, but since I have many FOVs ~2TB in size across 12 rounds on an individual FOV basis (i.e. sect1_Time00000_Point0007_ChannelL-750,DAPI,L-488_Seq0007.nd2), I really struggled to load them with the existing starfish tutorials without having to split them tediously into separate DAPI and FISH channels.
I was hoping the spacetxx-writer would help, and from the looks of it, it built without issues using docker. I did not get an error message. The last few lines of the build were:
When trying to run spacetx-writer, I get the following error:
zsh: command not found: spacetx-writer
I am not certain if something went wrong with the build, or what I am doing wrong. I followed the usage instructions of the simple example with my filenames, but find it a little hard to trouble shoot.
I am running this on a Mac OsX Ventura 13.3.1 (M1 Max, 32GB)
The text was updated successfully, but these errors were encountered: