Mercurial > repos > iuc > hal_maf2hal
changeset 1:8af265f90d58 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/haltools commit f46096b336bf460424143fc9d633b5e7c20bf1cf
| author | iuc |
|---|---|
| date | Thu, 05 Mar 2026 11:32:14 +0000 |
| parents | 0cfe56c4ac68 |
| children | |
| files | hal_maf2hal.xml macros.xml |
| diffstat | 2 files changed, 5 insertions(+), 5 deletions(-) [+] |
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--- a/hal_maf2hal.xml Fri Feb 06 10:45:54 2026 +0000 +++ b/hal_maf2hal.xml Thu Mar 05 11:32:14 2026 +0000 @@ -12,12 +12,12 @@ cp '$mode.input_hal' writable_hal.hal && #end if ## Uncompress input - #if $input_maf.ext.endswith('.gz'): + #if $input_maf.is_of_type('maf.gz'): gunzip -c '$input_maf' > uncompressed_input.maf && - #else if $input_maf.ext.endswith('.bz2'): + #else if $input_maf.is_of_type('maf.bz2'): bunzip2 -c '$input_maf' > uncompressed_input.maf && #else - cp '$input_maf' uncompressed_input.maf && + ln -s '$input_maf' uncompressed_input.maf && #end if maf2hal #if $refGenome:
--- a/macros.xml Fri Feb 06 10:45:54 2026 +0000 +++ b/macros.xml Thu Mar 05 11:32:14 2026 +0000 @@ -5,7 +5,7 @@ </requirements> </xml> <token name="@TOOL_VERSION@">2.9.9</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@PROFILE@">25.1</token> <xml name="stdio"> <stdio> @@ -171,7 +171,7 @@ <validator type="regex" message="Enter without leading or trailing spaces">^\S(?:.*\S)?$</validator> </xml> <xml name="validator_comma_list"> - <validator type="regex" message="Enter a comma separated list of genomes, without leading or trailing spaces">^\S(?:[^,]*\S)?(?:,\S(?:[^,]*\S)?)*$</validator> + <validator type="regex" message="Enter a comma separated list of genomes, without leading or trailing spaces">^[^,\s]+(,[^,\s]+)*$</validator> </xml> <xml name="validator_newick"> <validator type="regex" message="Enter a Newick tree">^.*;$</validator>