| Previous changeset 11:a472e995d157 (2019-08-27) Next changeset 13:6a675c3aa610 (2021-02-10) |
|
Commit message:
"planemo upload commit 5d3fc4232e0e036ac1ed9e2c36adc41d6af4987f" |
|
modified:
macros.xml umi-tools_extract.xml |
| b |
| diff -r a472e995d157 -r d5ff68d2d5ff macros.xml --- a/macros.xml Tue Aug 27 17:10:51 2019 -0400 +++ b/macros.xml Tue Sep 10 14:28:00 2019 -0400 |
| b |
| @@ -3,8 +3,6 @@ <macro name="barcode_sanitizer" > <sanitizer invalid_char=""> <valid initial="string.letters,string.digits"> - <add value="(" /><!-- left bracket --> - <add value=")" /><!-- right bracket --> <add value="*" /><!-- asterisk --> <add value="," /><!-- comma --> <add value="." /><!-- period --> @@ -13,8 +11,15 @@ <add value=">" /><!-- greater than --> <add value="?" /><!-- question mark --> <add value="_" /><!-- underscore --> + <add value="(" /><!-- left bracket --> + <add value=")" /><!-- right bracket --> + <add value="["/> <!-- left square bracket --> + <add value="]"/> <!-- right square bracket --> <add value="{"/><!-- left brace --> <add value="}"/><!-- right brace --> + <add value="^"/> <!-- caret --> + <add value="-"/> + <add value="!"/> </valid> </sanitizer> </macro> |
| b |
| diff -r a472e995d157 -r d5ff68d2d5ff umi-tools_extract.xml --- a/umi-tools_extract.xml Tue Aug 27 17:10:51 2019 -0400 +++ b/umi-tools_extract.xml Tue Sep 10 14:28:00 2019 -0400 |
| b |
| @@ -1,4 +1,4 @@ -<tool id="umi_tools_extract" name="UMI-tools extract" version="@VERSION@.0"> +<tool id="umi_tools_extract" name="UMI-tools extract" version="@VERSION@.1"> <description>Extract UMI from fastq files</description> <macros> <import>macros.xml</import> @@ -105,24 +105,7 @@ represent the random positions and Xs to indicate the bc positions. Bases with Ns will be extracted and added to the read name. Remaining bases, marked with an X will be reattached to the read."> - <sanitizer invalid_char=""> - <valid initial="string.letters,string.digits"> - <add value="!="/> - <add value="-"/> - <add value="_"/> - <add value="."/> - <add value="?"/> - <add value="<"/><!-- left triangle bracket --> - <add value=">"/><!-- right triangle bracket --> - <add value="["/> <!-- left square bracket --> - <add value="]"/> <!-- right square bracket --> - <add value="^"/> <!-- caret --> - <add value="{"/> <!-- left curly --> - <add value="}"/> <!-- right curly --> - <add value="("/> <!-- left parenthesis --> - <add value=")"/> <!-- right parenthesis --> - </valid> - </sanitizer> + <expand macro="barcode_sanitizer" /> </param> <param name="prime3" argument="--3prime" type="boolean" label="Is the barcode at the 5' end?" |