Appion

When bypassing DMF, the emanrecon job file is set up to automatically transfer the files from garibaldi to the main filesystem using rsync. However, the path is set incorrectly in garibaldi.php (I think). Here is what the last lines of one of my job files looks like:

tar -cvzf model.tar.gz threed.*a.mrc
tar -cvzf results.tar.gz fsc* cls* refine.* particle.* classes.* classes_*.* proj.* sym.* .emanlog *txt *.job

#upload files back to main filesystem
rsync -rltouv --partial model.tar.gz amibox03.scripps.edu:/ami/data00/appion/10oct21z/reconemanrecon16/model.tar.gz
rsync -rltouv --partial results.tar.gz amibox03.scripps.edu:/ami/data00/appion/10oct21z/reconemanrecon16/results.tar.gz

~bcarr/appionbin/updateAppionDB.py 237 D 286
exit

The path is missing a slash between the directories recon and emanrecon16 and therefore the transfer fails. In addition, the tar files need to be unzipped before you can upload the recon. Otherwise you get the following error on the upload recon webpage because resolution.txt is inside results.tar.gz.

ERROR: /ami/data00/appion/10dec30c/recon/emanrecon6/resolution.txt not exist

I thought maybe uploadRecon.py would unzip the files if they weren't already, but I guess not because when I manually copied resolution.txt over and tried to upload again I got this error in the log file:

*** FATAL ERROR *** 
fsc file does not exist

Hopefully this is an easy fix to correct the path and add two "tar -xvf" lines in the job file.