Cistrome

[Livi81]

Hi,

I'm a bench biologist and have been using 'cistrome' for various chip seq analysis, which has been great. I was interested in integrating some previously published microarray data, however when I try and upload the affymetrix cel files with txt summary I get this error.

An error occurred running this job: python: can't open file '/usr/local/cistrome/ap/galaxy_dist/tools/expression/upload.py': [Errno 2] No such file or directory

Any suggestions?

Many thanks

[peromhc]

you should start by making sure that this file actually exists in the place the program expects it to.. This is very likely the problem.

Try:

head /usr/local/cistrome/ap/galaxy_dist/tools/expression/upload.py

if it gives you similar error, then thats the problem. Note that the command should return the 1st 10 lines of the file upload.py if everything is OK.

[Livi81]

Hi,

Thanks for the suggestion. I've since tried uploading different files from different directories and unfortunately I get the same message.

I probably completely wrong but I think the uploading part might be the problem and 'usr/local/cistrome/ap/galaxy_dist/tools/expression' is where the file is put if successfully uploaded, and because it doesn't get there I get this error.

Please don't hesitate to correct me if this is complete nonsense, which it probably is as I'm just a layman trying to make sense of it!

Below is the tool I'm trying to use

http://cistrome.dfci.harvard.edu/ap/root