actions/superlint
1
0
Fork 0
mirror of https://github.com/super-linter/super-linter.git synced 2024-11-26 02:31:00 -05:00
Code Issues Projects Releases Packages Wiki Activity

Fix bug in Snakemake file regex

Browse source
This commit is contained in:
kpj 2020-09-11 13:49:05 +02:00
parent ec0577ae5b
commit e1b2fd6085
1 changed files with 2 additions and 2 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

4
lib/linter.sh
View file

@ -1869,7 +1869,7 @@ if [ "${VALIDATE_SNAKEMAKE_LINT}" == "true" ]; then
# Lint the files with snakefmt # # Lint the files with snakefmt #
################################ ################################
# LintCodebase "FILE_TYPE" "LINTER_NAME" "LINTER_CMD" "FILE_TYPES_REGEX" "FILE_ARRAY" "FILTER_REGEX_INCLUDE" "FILTER_REGEX_EXCLUDE" # LintCodebase "FILE_TYPE" "LINTER_NAME" "LINTER_CMD" "FILE_TYPES_REGEX" "FILE_ARRAY" "FILTER_REGEX_INCLUDE" "FILTER_REGEX_EXCLUDE"
LintCodebase "SNAKEMAKE_LINT" "snakemake" "snakemake --lint -s" "\(Snakefile|.*\.smk\)\$" "${FILE_ARRAY_SNAKEMAKE[@]}" "${FILTER_REGEX_INCLUDE}" "${FILTER_REGEX_EXCLUDE}" LintCodebase "SNAKEMAKE_LINT" "snakemake" "snakemake --lint -s" ".*\(Snakefile\|\.smk\)\$" "${FILE_ARRAY_SNAKEMAKE[@]}" "${FILTER_REGEX_INCLUDE}" "${FILTER_REGEX_EXCLUDE}"
fi fi
###################### ######################
@ -1880,7 +1880,7 @@ if [ "${VALIDATE_SNAKEMAKE_SNAKEFMT}" == "true" ]; then
# Lint the files with snakefmt # # Lint the files with snakefmt #
################################ ################################
# LintCodebase "FILE_TYPE" "LINTER_NAME" "LINTER_CMD" "FILE_TYPES_REGEX" "FILE_ARRAY" "FILTER_REGEX_INCLUDE" "FILTER_REGEX_EXCLUDE" # LintCodebase "FILE_TYPE" "LINTER_NAME" "LINTER_CMD" "FILE_TYPES_REGEX" "FILE_ARRAY" "FILTER_REGEX_INCLUDE" "FILTER_REGEX_EXCLUDE"
LintCodebase "SNAKEMAKE_SNAKEFMT" "snakefmt" "snakefmt --config ${SNAKEMAKE_SNAKEFMT_LINTER_RULES} --diff" "\(Snakefile|.*\.smk\)\$" "${FILE_ARRAY_SNAKEMAKE[@]}" "${FILTER_REGEX_INCLUDE}" "${FILTER_REGEX_EXCLUDE}" LintCodebase "SNAKEMAKE_SNAKEFMT" "snakefmt" "snakefmt --config ${SNAKEMAKE_SNAKEFMT_LINTER_RULES} --diff" ".*\(Snakefile\|\.smk\)\$" "${FILE_ARRAY_SNAKEMAKE[@]}" "${FILTER_REGEX_INCLUDE}" "${FILTER_REGEX_EXCLUDE}"
fi fi
###################### ######################