Pull request #461: Release/v2.17.1Merge in DAT/vardb_loaders from release/v2.17.1 to master
* commit 'fc6dcb6f2366f675d53b629829db9bcf1f5a13f3':
setup.cfg edited online with Bitbucket
remove debugging code
fixes after testing
ignore case where file does not exist fore arly pipeline version
change column check to not use db
fix bug with missing columns; update tests
fix sql
Pull request #460: fix bug with missing columns; update testsMerge in DAT/vardb_loaders from bugfix/VDB-2178-handle-missing-expected-ploidetect-columns to develop
* commit '43fe78fb2df8e67990ef8f6b25e00c7e963390ef':
remove debugging code
fixes after testing
ignore case where file does not exist fore arly pipeline version
change column check to not use db
fix bug with missing columns; update tests
Pull request #457: Release/v2.17.0Merge in DAT/vardb_loaders from release/v2.17.0 to master
* commit '6cb174b1af3809e09b8ab2ae465af3fba426e59d':
setup.cfg edited online with Bitbucket
fix colnames in comparators df
handle possibly missing column in ploidetect
handle possibly missing col in drug tx
bump vdb schema version requirement
update disease comparator column names
load intersect-parsed types simultaneously...
Pull request #456: Bugfix/minor fixesMerge in DAT/vardb_loaders from bugfix/minor-fixes to develop
* commit '59cb0a0888165ff278f28cb31abbe48e5f421294':
fix colnames in comparators df
handle possibly missing column in ploidetect
handle possibly missing col in drug tx
bump vdb schema version requirement
Pull request #451: Feat/add disallowed sows script.pyMerge in DAT/vardb_loaders from feat/add-disallowed-sows-script.py to master
* commit 'e8665978d8319d9fdaf97e72d1039675c035e711':
-remove pip-wheel-metadata/vardb_loaders-2.16.0.dist-info -add pip-wheel-metadata/* to .gitignore
- update setup.cfg - add args option to choose to create a file with SOWs to add - add logger.info to track progress - change 'next' wording to 'transition' - fix t...
Pull request #452: Feat/VDB-2169 add project altname loadingMerge in DAT/vardb_loaders from feat/VDB-2169-add-project-altname-loading to develop
* commit '2d35c7a666946f74873badbf97127109d2f54158':
add null value to arg for test
add func to load altnames and fix error
- update setup.cfg- add args option to choose to create a file with SOWs to add
- add logger.info to track progress
- change 'next' wording to 'transition'
- fix ticket transitioning bug
- VDB-2071- Create script to update confluence SOWs table with SOWs from tickets in backlog, as well as update each ticket
-Create script to take SOWs from confluence and add them into the db, optionally a single SOW or list.txt can be provided instead.
- VDB-2071- Create script to update confluence SOWs table with SOWs from tickets in backlog, as well as update each ticket
-Create script to take SOWs from confluence and add them into the db, optionally a single SOW or list.txt can be provided instead.
Pull request #449: merge back to devMerge in DAT/vardb_loaders from master to develop
* commit '1ea94d90581217e9864985e575e46b69f6b1e115':
setup.cfg edited online with Bitbucket
Pull request #448: Release/v2.16.1Merge in DAT/vardb_loaders from release/v2.16.1 to master
* commit '9a8449eb8b6c8a5b0823c6f5eac97bec94e52325':
setup.cfg edited online with Bitbucket
update test data and schema version
include tumour_char column
cleanup in script
only load mavis.v>=3
add script and update loader
Pull request #447: update test data and schema versionMerge in DAT/vardb_loaders from bugfix/update-supplemental-library-data-test-vals to develop
* commit 'bb6c7d872217c4d0d9a5eb5f3545165062ce7f06':
update test data and schema version
Pull request #446: include tumour_char columnMerge in DAT/vardb_loaders from feat/VDB-2137-add-tumour-char-to-supplemental-library-data to develop
* commit '5833205db3da228e7e685adde550c18fd50c482f':
include tumour_char column
Pull request #445: Feat/VDB-1903 mavis backfill scriptMerge in DAT/vardb_loaders from feat/VDB-1903-mavis-backfill-script to develop
* commit 'bf46a3dc6ba10e83a73fcfb69cf7c63ffaa1efec':
cleanup in script
only load mavis.v>=3
add script and update loader
Pull request #444: merge back to devMerge in DAT/vardb_loaders from master to develop
* commit '57cef270b721971fdc542bbba4cf85f1b8d2a59b':
setup.cfg edited online with Bitbucket
Pull request #443: Release/v2.16.0Merge in DAT/vardb_loaders from release/v2.16.0 to master
* commit 'b977a274b40f0d964fa0571ea165e02b4dee3c22': (25 commits)
setup.cfg edited online with Bitbucket
skip oasis test with comment
allow records with no merge bam path
cleanup
add option and update test
update hrd loader
bump schema version to get new columns
add test data
add tests
add searchability columns to df...
Pull request #442: skip oasis test with commentMerge in DAT/vardb_loaders from bugfix/VDB-2124-skip-oasis-tests to develop
* commit '9c9f57277263bfab1a050fa22c722c5b590f3214':
skip oasis test with comment
Eleanor Lewis
Owen Coelho