- 19 May, 2015 1 commit
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Mathieu Giraud authored
Note that the check will work on Python 2.6, but not on Python 2.4.
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- 18 May, 2015 7 commits
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Mikaël Salson authored
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Mikaël Salson authored
Avoid failing when only one file is selected. To test that, we check if the 'custom' parameter is a list. If so, several files have been selected.
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
If we are on an admin page when one starts to impersonate, we fall back to the patient list page. This was before a blocking situation. When one stops to impersonate, we can always stay on the same page.
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Mathieu Giraud authored
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Mathieu Giraud authored
Some admins prefer to land on the admin page.
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- 15 May, 2015 28 commits
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Mathieu Giraud authored
All KmerSegmenter should-vdj tests (-2q) are now also run on revcomp'd files (-r), and should give exactly the same output than the original test files. Even if it works, we choose to not run FineSegmenter tests with the same option. It would test nothing more, as the '-c segment' command first calls the KmerSegmenter to select the best locus with its strand.
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
See 13380ba7.
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Mathieu Giraud authored
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Mathieu Giraud authored
should-vdj-to-tap.py: tests on KmerSegmenter include '-2' option, looking for unexpected recombinations All the outputs should be identical.
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Mathieu Giraud authored
Main output has changed in 1f501e13.
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Mikaël Salson authored
Hopefully we should not change this file before a few weeks…
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Yann Ferret authored
(→email 2015/30/03)
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Mikaël Salson authored
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Mikaël Salson authored
The option was passed when we didn't take into account the number of reads. This is now done and therefore we don't have to specify a lower-than-usual e-value for the tests.
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Mikaël Salson authored
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Mikaël Salson authored
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Mikaël Salson authored
The format doesn't support having several independent entries per system. The format will change to deal with more diverse germlines (eg. TRA+D, which in somes cases has no "4").
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Mikaël Salson authored
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Mikaël Salson authored
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Mikaël Salson authored
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Mathieu Giraud authored
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Mathieu Giraud authored
Sets code_short/info_extra in the FineSegmenter by running again a KmerSegmenter.
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
More up-to-date information is available in the doc/*.org files as well as in server/Makefile.
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
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Mathieu Giraud authored
This is a better name than 'VdJa', as we now also detect DdJa recombinations.
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Mikaël Salson authored
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- 13 May, 2015 4 commits
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Mikaël Salson authored
The syntax was not working: split the test.
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Mikaël Salson authored
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Mikaël Salson authored
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Mikaël Salson authored
Therefore a sequence can go in several files
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