Hello Hakeem, Did you ever solve this import problem? We suddenly started seeing this on our main (old) Galaxy server, which we have not intentionally changed recently: $ hg log | head changeset: 17125:e837a68e8d14 tag: tip parent: 17121:7a4e3a661a76 parent: 17124:46a4ef8850b5 user: Nate Coraor <nate@bx.psu.edu> date: Fri May 15 15:21:34 2015 -0400 summary: Merge stable to default I suspect either a system update, or an accidental change where I meant to edit the test instance on the same machine, or a new Galaxy instance we're working on using a new VM. Turning on debug level logging, I could deduce the ImportError happens when the local job runner tries to run the upload1 tool's Python script: galaxy.jobs.runners DEBUG 2016-03-04 11:14:17,449 (13809) command is: python /mnt/galaxy/galaxy-dist/tools/data_source/upload.py /mnt/galaxy/galaxy-dist /mnt/galaxy/galaxy-dist/database/tmp/tmp2qzTWC /mnt/galaxy/galaxy-dist/database/tmp/tmpC6Tq0J 16915:/mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/dataset_16915_files:/mnt/galaxy/galaxy-dist/database/files/016/dataset_16915.dat; return_code=$?; python /mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/set_metadata_SP3B7H.py /mnt/galaxy/galaxy-dist/database/tmp/tmp2qzTWC /mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/galaxy.json /mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/metadata_in_HistoryDatasetAssociation_16276_0wz2tR,/mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/metadata_kwds_HistoryDatasetAssociation_16276_1IeKfn,/mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/metadata_out_HistoryDatasetAssociation_16276_cKjsLG,/mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/metadata_results_HistoryDatasetAssociation_16276_iyGIDI,/mnt/galaxy/galaxy-dist/database/files/016/dataset_16915.dat,/mnt/galaxy/galaxy-dist/database/job_working_directory/013/13809/metadata_override_HistoryDatasetAssociation_16276_K9ebdM; sh -c "exit $return_code" I can reproduce the error at the command line with just: $ python /mnt/galaxy/galaxy-dist/tools/data_source/upload.py Traceback (most recent call last): File "/mnt/galaxy/galaxy-dist/tools/data_source/upload.py", line 8, in <module> from galaxy import eggs ImportError: cannot import name eggs I could hack this script based on how Galaxy adds its libraries to the Python import path, and now uploads work again: $ hg diff tools/data_source/upload.py diff -r c3cef260df88 tools/data_source/upload.py --- a/tools/data_source/upload.py Fri May 15 15:20:17 2015 -0400 +++ b/tools/data_source/upload.py Fri Mar 04 11:12:51 2016 +0000 @@ -5,6 +5,10 @@ # to be reflected in galaxy.web.controllers.tool_runner and galaxy.tools import urllib, sys, os, gzip, tempfile, shutil, re, gzip, zipfile, codecs, binascii + +# Peter hack 2016/03/04 due to unexplained import failure... +sys.path.insert(1, "/mnt/galaxy/galaxy-dist/lib") + from galaxy import eggs # need to import model before sniff to resolve a circular import dependency import galaxy.model However, this is only treating the symptoms rather than the as yet unexplained root cause of the problem. Peter On Thu, Sep 5, 2013 at 8:22 PM, Hakeem Almabrazi <halmabrazi@idtdna.com> wrote:

Hi,

I started getting the following error whenever I try to load a file into Galaxy local.

Traceback (most recent call last):

File "/usr/local/galaxy/galaxy-dist/tools/data_source/upload.py", line 8, in <module>

from galaxy import eggs

ImportError: cannot import name eggs

I will appreciate if someone can tell me what could happen to cause such issue and how to resolve it.

Regards,

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