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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit bfc4ff4956b94885638ae07a2560bac5f84fcca8 |
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modified:
bcftools_cnv.xml macros.xml |
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| diff -r 6d35a3780bfd -r 143796b504eb bcftools_cnv.xml --- a/bcftools_cnv.xml Thu Jan 12 15:44:39 2023 +0000 +++ b/bcftools_cnv.xml Tue Jul 16 17:13:37 2024 +0000 |
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| @@ -181,14 +181,14 @@ <param name="lrr_weight" type="hidden" value="0" /> </when> </conditional> - <param argument="--err-prob" name="err_prob" type="float" value="1e-4" label="Err Prob" help="Uniform error probability" /> - <param argument="--same-prob" name="same_prob" type="float" value="0.5" min="0" max="1" label="Same Prob"> + <param argument="--err-prob" type="float" value="1e-4" label="Err Prob" help="Uniform error probability" /> + <param argument="--same-prob" type="float" value="0.5" min="0" max="1" label="Same Prob"> <help> The prior probability of the query and the control sample being the same. Setting to 0 calls both independently, setting to 1 forces the same copy number state in both. (default: 0.5) </help> </param> - <param argument="--xy-prob" name="xy_prob" type="float" min="0." max="1." label="Xy Prob" value="1e-9"> + <param argument="--xy-prob" type="float" min="0." max="1." label="Xy Prob" value="1e-9"> <help> The HMM probability of transition to another copy number state. Increasing this value leads to smaller and more frequent calls. |
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| diff -r 6d35a3780bfd -r 143796b504eb macros.xml --- a/macros.xml Thu Jan 12 15:44:39 2023 +0000 +++ b/macros.xml Tue Jul 16 17:13:37 2024 +0000 |
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| @@ -174,7 +174,7 @@ </token> <xml name="macro_AF_file"> - <param name="AF_file" argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" /> + <param argument="--AF-file" type="data" format="tabular" optional="true" label="Allele frequencies file" help="Tab-delimited file containing the columns CHR,POS,REF,ALT,AF" /> </xml> <!-- This may need to bgzip and tabix the file --> <token name="@PREPARE_AF_FILE@"> @@ -191,7 +191,7 @@ </token> <xml name="macro_estimate_AF"> - <param name="estimate_AF" argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples ("-") or samples listed in <file>" /> + <param argument="--estimate-AF" type="data" format="data" optional="true" label="Estimate allele frequency" help="Calculate AC,AN counts on the fly, using either all samples ("-") or samples listed in <file>" /> </xml> <token name="@ESTIMATE_AF@"> #if 'estimate_AF' in $section and $section.estimate_AF: |