search

maximilianh / cellBrowser

main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datasets, http://cellbrowser.rtfd.org
https://github.com/ucscGenomeBrowser/cellBrowser/
GNU General Public License v3.0
104 stars 40 forks source link

`cbBuild -i config-file` fails on latest release version 0.2 #23

Closed pcm32 closed 5 years ago

pcm32 commented 5 years ago

When running cbBuild like this cbBuild -i config-file -o output on a directory:

ls -l
total 2040
-rw-r--r--    1 root     root           157 Sep 17 14:09 config-file
-rw-r--r--    1 root     root       1802587 Aug  8 12:52 exprMatrix.tsv
-rw-r--r--    1 root     root        181579 Aug  8 12:55 meta.tsv
-rw-r--r--    1 root     root         90896 Aug  8 12:54 tsne.coords.tsv

It fails with ERROR:root:File cellbrowser.conf does not exist.

If I rename the config file to cellbrowser.config, then it doesn't fail (at the same error). I presume this is because the argument parsing is appending config files and it has a default (so if the default is not found, it fails).

This is with the recently tagged 0.2 version.

maximilianh commented 5 years ago

Uh oh I fixed this a while ago but then forgot to close the ticket. This was a very stupid bug, it seems to work now, I just checked in the current master branch again.