chipathlon merge requestshttps://git.unl.edu/hcc/chipathlon/-/merge_requests2017-02-03T02:10:16-06:00https://git.unl.edu/hcc/chipathlon/-/merge_requests/12Resolve "Enhance Input Run Format / Parsing"2017-02-03T02:10:16-06:00aknecht2Resolve "Enhance Input Run Format / Parsing"Closes #12
The only thing I left out is the add species to genome information. The genome id's are just strings so a user could add species information there IF they really wanted i.e. grch38p6_human. It's information that doesn't nee...Closes #12
The only thing I left out is the add species to genome information. The genome id's are just strings so a user could add species information there IF they really wanted i.e. grch38p6_human. It's information that doesn't need to be validated and is never used so it seemed unnecessary to include it.Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/13Resolve "Add download support for bam files"2017-02-03T13:50:13-06:00aknecht2Resolve "Add download support for bam files"Closes #5Closes #5Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/14Resolve "Enhance type strictness and parsing"2017-02-13T14:48:08-06:00aknecht2Resolve "Enhance type strictness and parsing"Closes #4
Most of the modifications are done in workflow_job.py
A lot of changes across all the yaml files to conform to the new standard.Closes #4
Most of the modifications are done in workflow_job.py
A lot of changes across all the yaml files to conform to the new standard.Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/15Added validation for config file.2017-02-13T19:00:28-06:00aknecht2Added validation for config file.Closes #16
Very minor changes. Just added some validation when loading the config file.Closes #16
Very minor changes. Just added some validation when loading the config file.Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/16Resolve "Job Param File Adjustments"2017-02-14T13:10:18-06:00aknecht2Resolve "Job Param File Adjustments"Closes #13
Enabling default rawfile arguments for peak callers like gem & peakranger required several miscellaneous changes. Updated peak_call yaml as well.Closes #13
Enabling default rawfile arguments for peak callers like gem & peakranger required several miscellaneous changes. Updated peak_call yaml as well.Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/17Resolve "Run File Helper Script"2017-02-16T10:58:02-06:00aknecht2Resolve "Run File Helper Script"Closes #11
Created the script to generate a run file from a list of experiments.
Fixed a few minor bugs while testing the runs as well.Closes #11
Created the script to generate a run file from a list of experiments.
Fixed a few minor bugs while testing the runs as well.Input ParsingNatasha PavlovikjNatasha Pavlovikjhttps://git.unl.edu/hcc/chipathlon/-/merge_requests/23Script updates2017-04-05T10:53:25-05:00aknecht2Script updatesCloses #14Closes #14Input Parsingaknecht2aknecht2