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genome-nexus / genome-nexus-annotation-pipeline

Library and tool for annotating MAF files using Genome Nexus Webserver API
MIT License
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Add subcommands annotate and merge #204

Closed ozguzMete closed 1 year ago

ozguzMete commented 1 year ago

Merge part added/implemented to the genome-nexus-annotation-pipeline from https://github.com/genome-nexus/annotation-tools project

In order to do this. Subcommands added. Help outputs updated accordingly.

When -h passed as cli arguments help screen of annotate and merge will be printed When annotate -h passed as cli arguments, help screen of annotate will be printed When merge-h passed as cli arguments, help screen of merge will be printed When subcommand is omitted, the default behavior is annotate.

inodb commented 1 year ago

@ozguzMete looks like the build job is failing - could you help with this? Thanks!

ozguzMete commented 1 year ago

@inodb with the latest commits, on one hand, it says genome-nexus-annotation-pipeline — Build #880 failed in 1.9 sec on the other hand it says Merging can be performed automatically with 1 approving review. I can't access the failed build URL http://dashi-dev.cbio.mskcc.org:8090/job/genome-nexus-annotation-pipeline/880/display/redirect

is it OK or NOK?