- 05 Jul, 2019 1 commit
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Thonier Florian authored
This field should show a null value instead of 0 if not present link to #3943
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- 01 Apr, 2019 1 commit
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Mathieu Giraud authored
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- 27 Mar, 2019 1 commit
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- 08 Mar, 2019 1 commit
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Mathieu Giraud authored
should-vdj-to-tap.py could be moved to tools.
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- 28 Feb, 2019 1 commit
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Mathieu Giraud authored
should@28eaf5a6 see #3762
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- 12 Feb, 2019 1 commit
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Mikaël Salson authored
should@2a21dfd9
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- 15 Jan, 2019 2 commits
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Mathieu Giraud authored
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Mikaël Salson authored
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- 07 Jan, 2019 1 commit
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Mikaël Salson authored
- Define a function that could be used for post-processing - Use defs.py to determine where the pre-process are stored - Should tests See #3647
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- 04 Dec, 2018 3 commits
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Mathieu Giraud authored
Closes #3585.
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Mathieu Giraud authored
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Mathieu Giraud authored
See #3585.
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- 30 Nov, 2018 1 commit
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Mathieu Giraud authored
See #3647.
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- 23 Nov, 2018 1 commit
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Mathieu Giraud authored
should@8f711a78
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- 16 Oct, 2018 7 commits
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Thonier Florian authored
link to #3054
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Thonier Florian authored
link to 3054
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Thonier Florian authored
link to #3054
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Thonier Florian authored
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Thonier Florian authored
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Thonier Florian authored
link to #3054
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- 15 Oct, 2018 1 commit
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Mikaël Salson authored
This will allow to more reliably add percentages that otherwise would give meaningless results. In the test we now have 497 reads out of 786861.
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- 07 Aug, 2018 5 commits
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Mathieu Giraud authored
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Mathieu Giraud authored
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Ryan Herbert authored
allows vidjil files to contain no clones
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Mathieu Giraud authored
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Mathieu Giraud authored
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- 26 Jul, 2018 1 commit
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Alexia Omietanski authored
Fixes #2929
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- 18 Jul, 2018 12 commits
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Ryan Herbert authored
So that dependencies only need to be installed if VidjilParser is used. Thanks @mikael-s :)
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Ryan Herbert authored
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Ryan Herbert authored
Being a fast parser allows us to gain a significant amount of time when executing.
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Ryan Herbert authored
Restore old functionality and make new functionality optional. Due to the amount of time it takes to run the vidjilparser we may need to decide between speed and memory efficiency See #3234
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Ryan Herbert authored
split VidjilWriter into VidjilWriter and VidjilFileWriter
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Ryan Herbert authored
use yajl2 as the ijson parser since it is much faster. See #3234,#3235
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Ryan Herbert authored
use a list for the buffer and join strings when needed. This should be slightly faster than concatenating strings.
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Ryan Herbert authored
due to the error in the prefix usage, we were extracting all clones from the file instead of the top N, leading to horrendous performance issues.
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Ryan Herbert authored
changes to vidjilparser.py allow us to simply extract the root of a json file and still apply constraints to subfields, so we no longer need to specify all the fields we need to extract. See #3234
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Ryan Herbert authored
fixes and issue where applying a new predicate to a subfield of a prefix included in another field would not be taken into account. See #3235
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Ryan Herbert authored
group all checks into a single call to any, to avoid multiple iterations over the same data. Also remove some comparisons that don't seem necessary.
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Ryan Herbert authored
The introduction of the buffer caused an issue with comma delimitation when th first element of an array or map was discarded (from not meeting predicate requirements), leading to an extra comma and therefore an invalid JSON output. By saving the value of the "previous" variable when buffering begins, we can restore the variables value when discarding the buffered content. See #3235
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