Dev gene lab reference annotations v gl dppd 7110 a #131
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- Included Ensembl versions in Updates section of DPPD document - Fixed formatting in reference table - Recreated annotation tables, fixed broken columns - Added locally created databases to reference table - Fixed R version in workflow document R installation instructions - Updated reference table directory in workflow document instructions step #3 - Microbes-related changes: Added microbes to reference table, updated changelog
- Completed refactoring of script and addition of microbial organisms
…tations_vGL-DPPD-7110-A Updating pipeline and workflow for GL_RefAnnotTable-A 1.1.0
- Add software updates to CHANGELOG - Add input and output variables to DPPD document - Prepend species name to output files for non-ENSEMBL reference organisms to make sure it is in the file names - Fix unclear variable names and wording in some functions in the script - Move GO column to the end of the annotation tables when applicable
…tations_vGL-DPPD-7110-A Software version updates, input output variables defined, updated annotation tables
This variable was the same as target_organism, so it was replaced with that variable when necessary.
…tations_vGL-DPPD-7110-A Typo fixes
…tations_vGL-DPPD-7110-A [GL_RefAnnotTable] Installation updates
remove lib path
Store workflow version workflow_code folder name as a variable
Add workflow version variable (for finding install-org-db path) to pipeline documentation
…r workflow_version
…tations_vGL-DPPD-7110-A [GL_RefAnnotTable] Execution fixes
Added command to create the R_libs folder if it doesn't already exist.
Added R_LIB_USER folder creation and SINGULARITY_CACHEDIR setting
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