dnalc_fAPI_apps

DNALC's iPlant foundation API apps

Original app names

dnalc-fastqc-stampede-0.10.1u1 @jamescarson3
dnalc-fxtrim-stampede-0.0.13.3u1 @jamescarson3
dnalc-tophat-stampede-2.0.11.1u1 @mwvaughn
dnalc-cuffdiff-stampede-2.1.1.2u1 @johnfonner
dnalc-cufflinks-stampede-2.1.1.2u1 @johnfonner
dnalc-cuffmerge-stampede-2.1.1u1 @johnfonner

New app names (public)

dnasubway-fastqc-lonestar-0.11.2.0u1
dnasubway-fastx-lonestar-0.0.13.2.0u1
dnasubway-tophat-refprep-lonestar-2.0.11.1u1
dnasubway-tophat-lonestar-2.0.11.1u1
dnasubway-cufflinks-lonestar-2.1.1u1
dnasubway-cuffdiff-lonestar-2.1.1u1
dnasubway-cuffmerge-lonestar-2.1.1u1

Porting guidelines

Deploy to a Lonestar4 clone. Use normal queue
Use showArguments where possible
Make sure to preserve the original logic and interfaces of the original wrapper scripts
Create a test job for each application, including input and output files
- /iplant/home/shared/iplant_DNA_subway is writeable by all project maintainers