scripts/cpsr_validate_input.py: indentation fixes, using a concatenated pattern string to egrep for the custom Ensembl Gene IDs (instead of looping over these one-by-one)
scripts/annoutils.py: just did a autopep8 -i to fix the indentation
scripts/pcgr_vcfanno.py: just did a autopep8 -i to fix the indentation
pcgr/cpsr.py: add a --pcgrr_conda option to specify the pcgrr conda env name
pcgrr/vignettes/input.Rmd: some fixes
pcgrr/vignettes/running.Rmd: some fixes, converted itemised list to a table at the bottom
scripts/cpsr_validate_input.py: indentation fixes, using a concatenated pattern string to egrep for the custom Ensembl Gene IDs (instead of looping over these one-by-one)scripts/annoutils.py: just did aautopep8 -ito fix the indentationscripts/pcgr_vcfanno.py: just did aautopep8 -ito fix the indentationpcgr/cpsr.py: add a--pcgrr_condaoption to specify the pcgrr conda env namepcgrr/vignettes/input.Rmd: some fixespcgrr/vignettes/running.Rmd: some fixes, converted itemised list to a table at the bottom