Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 44447ed08940782a4d022cd2dcddbdb2c2813ff4 https://github.com/galaxyproject/galaxy/commit/44447ed08940782a4d022cd2dcddb... Author: John Chilton jmchilton@gmail.com Date: 2017-11-14 (Tue, 14 Nov 2017)
Changed paths: M test/integration/test_data_manager_table_reload.py
Log Message: ----------- Use github instead of NCBI for problematic data manager test FASTA.
Seems to be failing many of the integration tool runs I've seen today. I've seen a couple different errors:
``` | File "/tmp/tmpVp6xM0/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_dbkeys_all_fasta/b1bc53e9bbc5/data_manager_fetch_genome_dbkeys_all_fasta/data_manager/data_manager_fetch_genome_all_fasta_dbkeys.py", line 312, in download_from_ncbi | return get_stream_reader(urlopen(url), tmp_dir) | File "/usr/lib/python2.7/urllib2.py", line 154, in urlopen | return opener.open(url, data, timeout) | File "/usr/lib/python2.7/urllib2.py", line 435, in open | response = meth(req, response) | File "/usr/lib/python2.7/urllib2.py", line 548, in http_response | 'http', request, response, code, msg, hdrs) | File "/usr/lib/python2.7/urllib2.py", line 473, in error | return self._call_chain(*args) | File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain | result = func(*args) | File "/usr/lib/python2.7/urllib2.py", line 556, in http_error_default | raise HTTPError(req.get_full_url(), code, msg, hdrs, fp) ```
and
``` Timed out after 60.25 seconds waiting on state. -------------------- >> begin captured stdout << --------------------- Problem in history with id adb5f5c93f827949 - summary of datasets below. -------------------------------------- | 1 - Create DBKey and Reference Genome (HID - NAME) | Dataset State: | queued | Dataset Blurb: | queued | Dataset Info: | None | Peek: | None | Dataset Job Standard Output: | None | Dataset Job Standard Error: | None | -------------------------------------- ```
Commit: 36dc1560e574c42550f9450184ae9c44e86459dc https://github.com/galaxyproject/galaxy/commit/36dc1560e574c42550f9450184ae9... Author: Nate Coraor nate@bx.psu.edu Date: 2017-11-16 (Thu, 16 Nov 2017)
Changed paths: M test/integration/test_data_manager_table_reload.py
Log Message: ----------- Merge pull request #5007 from jmchilton/problematic_data_manager
Use github instead of NCBI for problematic data manager test FASTA.
Compare: https://github.com/galaxyproject/galaxy/compare/a9685d3acd4c...36dc1560e574