Mercurial > repos > iuc > kc_align
changeset 10:97476dfde728 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/kc-align commit de05aab169e4fc4ee7130411d0081741bb246ce2
| author | iuc |
|---|---|
| date | Fri, 24 Jun 2022 15:57:35 +0000 |
| parents | 0c0288a9d92c |
| children | |
| files | kc-align.xml |
| diffstat | 1 files changed, 21 insertions(+), 3 deletions(-) [+] |
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--- a/kc-align.xml Mon Oct 12 18:09:09 2020 +0000 +++ b/kc-align.xml Fri Jun 24 15:57:35 2022 +0000 @@ -1,9 +1,27 @@ -<tool id="kc-align" name="Kc-Align" version="1.0.2" python_template_version="3.5"> +<tool id="kc-align" name="Kc-Align" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@"> + <macros> + <token name="@TOOL_VERSION@">1.0.2</token> + <token name="@VERSION_SUFFIX@">1</token> + </macros> + <xrefs> + <xref type="bio.tools">kc-align</xref> + </xrefs> <requirements> - <requirement type="package" version="1.0.2">kcalign</requirement> + <requirement type="package" version="@TOOL_VERSION@">kcalign</requirement> </requirements> <command detect_errors="exit_code"> <![CDATA[ + ## number of slots needs to be one or divisible by three + SLOTS=\${GALAXY_SLOTS:-1}; + while [ \$SLOTS -gt 1 ]; + do + if ! (( \$SLOTS % 3 )) ; then break; fi; + ((SLOTS--)); + done; + if [[ "\${GALAXY_SLOTS:-1}" -ne "\$SLOTS" ]]; then + >&2 echo "Warning: using only \$SLOTS threads (instead of the configured \${GALAXY_SLOTS:-1}), since it needs to be 1 or a multiple of three. Please contact your Galaxy Admin"; + fi; + kc-align --mode '$position.mode' --reference '$ref' @@ -17,7 +35,7 @@ -d '$position.dist' #end if $compress - -th \${GALAXY_SLOTS:-1} + -th "\$SLOTS" ]]></command> <inputs>