tiny-count: '--get-templates' argument#259

Merged

taimontgomery merged 9 commits intomasterfrom

Dec 14, 2022

Commits on Dec 6, 2022

Renaming the "Input FASTQ Files" header to "FASTQ/SAM Files" in samples.csv. Example configurations have also been removed from the files in the templates directory.
AlexTate
committed
Renaming the existing top-level command "get-template" to "get-templates"
AlexTate
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Refactoring timestamp code out of configuration.py and into util.py
AlexTate
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The commandline argument "--get-template" has been added to tiny-count. This argument is mutually exclusive with the --paths-file argument. When it is provided, tiny-count simply copies the templat…
AlexTate
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Shortened the introductory sections in tiny-count.md and corrected some out of date info in the standalone section. Removed the warning about reusing the same prefix between standalone runs since t…
AlexTate
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Decided to document the "{timestamp}" prefix token in the tiny-count help string so users know they can use it in their own
AlexTate
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Old config files that were stored in /templates/ have been moved to tests/testdata/config_files since these files are used in unit tests.
AlexTate
committed

Commits on Dec 7, 2022