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2020-05-04Remove debug flag from workflow submit•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-05-04Increase RAM for minimap2•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-05-03Set a RAM requirement on odgi_to_rdf to influence it to run on c5•••(because on a t3 it takes forever) Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-05-01Set verison tag on spodgi container image•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-30Merge pull request #47 from AndreaGuarracino/patch-15•••fixed UO_0000036 for yearPeter Amstutz
2020-04-30fixed UO_0000036 for yearAndrea Guarracino
2020-04-30Add py-dateutil to dependencies.•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-30Handle running in a container with no username•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-30Last addition/edits to the meta data schemalltommy
2020-04-30Merge pull request #41 from AndreaGuarracino/patch-14•••the date is now handled more formally (YYYY-MM-DD)LLTommy
2020-04-30Import script fixes•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-30Wrap import script to run as a workflow•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-29Fix description content type for PyPi•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-29Use subprocess invocation is backwards compatible with Python 3.5•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-29Add reference•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-29the date is now handled more formally•••all the date are saved as "YYYY-MM-DD"Andrea Guarracino
2020-04-29fixing JS due to name changes so the demo works againlltommy
2020-04-29Reverting country list back, something went wrong therelltommy
2020-04-29Merge pull request #40 from AndreaGuarracino/patch-13•••updated the script to manage list field, and added new terms into the dictsLLTommy
2020-04-28updated to manage list fields and added new control on nasopharyngeal/throat ...Andrea Guarracino
2020-04-28Updated with new termsAndrea Guarracino
2020-04-28Updated with new termsAndrea Guarracino
2020-04-28Updated - 1731 IDs - 2020/04/28Andrea Guarracino
2020-04-28Merge branch 'master' of https://github.com/arvados/bh20-seq-resourcelltommy
2020-04-28Decision to settle for float instead of integers for the coveragelltommy
2020-04-28Update spodgi docker image•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-28Call clustalw to compare sequence to reference•••Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com> Peter Amstutz
2020-04-28Whatever happend to the minimal metadata, I restored itlltommy
2020-04-28Adding field 'publication' to the maximum examplelltommy
2020-04-28Changes to the structure - we use lists now instead of strings where it makes...lltommy
2020-04-26Add enrichment vocabularies to gitlltommy
2020-04-26Pushing some new functions, rename some old oneslltommy
2020-04-26Adding a function, correcting some variable nameslltommy
2020-04-26Updating dicslltommy
2020-04-26Merge pull request #39 from BonfaceKilz/feature/display-results-of-api-consum...•••Feature/display results of api consumptionLLTommy
2020-04-26Merge from remote branch into feature/display-results-of-api-consumptionBonfaceKilz
2020-04-26Update styles to match suggested mockup•••Ref: https://xd.adobe.com/view/fa2b4841-e463-432e-7465-e96b4ed200ff-8c1a/screen/b84fcf66-9580-4ae2-b37d-7ee15401d627/Pangenome-Browser-Manual-Metadata-Host BonfaceKilz
2020-04-26Display the output of the queries as prettified JSON for nowBonfaceKilz
2020-04-26Jsonify response and pick the valuesBonfaceKilz
2020-04-26Add basic structure for interacting with the APIBonfaceKilz
2020-04-26Remove unnecessary JSBonfaceKilz
2020-04-26Put JS code in its own JS fileBonfaceKilz
2020-04-26Reposition sponsor logo at the bottomBonfaceKilz
2020-04-26Put CSS code into it's own separate CSS fileBonfaceKilz
2020-04-26Wrap extra flags to cater for non-bash terminals•••`pip install -e .[web]` does not work on zsh. Wrapping `.web` in quotes makes the command in all terminals BonfaceKilz
2020-04-26Make package data accessible from `setup.py`•••Based off: https://stackoverflow.com/a/39024947/3668255 BonfaceKilz
2020-04-26Update .gitignore fileBonfaceKilz
2020-04-26Update styles to match suggested mockup•••Ref: https://xd.adobe.com/view/fa2b4841-e463-432e-7465-e96b4ed200ff-8c1a/screen/b84fcf66-9580-4ae2-b37d-7ee15401d627/Pangenome-Browser-Manual-Metadata-Host BonfaceKilz
2020-04-26Display the output of the queries as prettified JSON for nowBonfaceKilz
2020-04-26Jsonify response and pick the valuesBonfaceKilz
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