diff --git a/Makefile b/Makefile index 94351d6..1fa87eb 100644 --- a/Makefile +++ b/Makefile @@ -3,7 +3,7 @@ SHELL := bash .SHELLFLAGS := -eu -o pipefail -c .DEFAULT_GOAL := help -all: install test download_human download_rat convert_human convert_rat get_goa_files merge_gafs +all: install test run dev: install @@ -70,4 +70,4 @@ get_gpad: merge_files: merge_gafs -kit_and_kaboodle: download_human download_rat convert_human convert_rat convert_p2g_annotations merge_gafs get_gpad \ No newline at end of file +run: download_human download_rat convert_human convert_rat convert_p2g_annotations merge_gafs validate_merged_gafs \ No newline at end of file diff --git a/src/gopreprocess/cli.py b/src/gopreprocess/cli.py index ea01e5b..6f8eadf 100644 --- a/src/gopreprocess/cli.py +++ b/src/gopreprocess/cli.py @@ -93,6 +93,7 @@ def check_errors(errors: list) -> int: summary.append(f"Rule: {rule}, Message: '{message}', Errors: {count}") print(summary) + click.echo(summary) @cli.command(name="convert_annotations")