Mercurial > repos > iuc > fastqe

changeset 2:a252d8415583 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqe commit 7f1ac61222e3b10cd9a82c7b35ea53985c06ba9c"
author iuc
date Fri, 24 Jul 2020 14:30:21 -0400
parents 8d3aff8ba8ad
children 819b8c1657d5
files fastqe.xml
diffstat 1 files changed, 9 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/fastqe.xml	Mon Jul 20 08:04:02 2020 -0400
+++ b/fastqe.xml	Fri Jul 24 14:30:21 2020 -0400
@@ -1,13 +1,17 @@
-<tool id="fastqe" name="FASTQE" version="0.2.6">
+<tool id="fastqe" name="FASTQE" version="0.2.6+galaxy0">
     <description>visualize fastq files with emoji's 🧬😎</description>
     <requirements>
         <requirement type="package" version="0.2.6">fastqe</requirement>
+        <requirement type="package" version="4.7">sed</requirement>
     </requirements>
     <command detect_errors="exit_code">
     <![CDATA[
 
-    #for i in $input:
-        ln -s '$i' '$i.element_identifier' &&
+    #import re
+
+    #set $filenames = [re.sub('[^\w\-\s.]', '_', $i.element_identifier) for $i in $input]
+    #for $i, $filename in zip($input, $filenames):
+        ln -s '$i' '$filename' &&
     #end for
 
     echo "<html><head><title>FASTQE Report 🤔</title></head><body><h1>FASTQE Report 🤔</h1>" > '$output' &&
@@ -18,8 +22,8 @@
         --min
         --long $long
         --max
-        #for i in $input:
-            '$i.element_identifier'
+        #for $filename in $filenames:
+            '$filename'
         #end for
         | sed 's/$/<br>/;s/^\([^\t]*\)\t\([^\t]*\)\t/<h2>\1: \2<\/h2>\n/' >> '$output' &&
 
@@ -52,8 +56,6 @@
 +=======+=======+
 | N     | 🚫    |
 +-------+-------+
-| N     | 🚫    |
-+-------+-------+
 | 2-9   | 💀    |
 +-------+-------+
 | 10–19 | 💩    |