Quote paths in converters

galaxyproject · Nov 12, 2016 · b44a977 · b44a977
1 parent 10f1bb5
commit b44a977
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Showing 5 changed files with 5 additions and 5 deletions.
diff --git a/lib/galaxy/datatypes/converters/fastqcssangergz_to_fastqcssanger.xml b/lib/galaxy/datatypes/converters/fastqcssangergz_to_fastqcssanger.xml
@@ -1,5 +1,5 @@
 <tool id="CONVERTER_fastqcssangergz_to_fastqcssanger" name="Convert fastqcssanger.gz files to fastqcssanger" version="1.0.0" hidden="true">
-  <command>gzip -dcf $input1 > $output1</command>
+  <command>gzip -dcf '$input1' > '$output1'</command>
   <inputs>
     <page>
         <param format="fastqcssanger.gz" name="input1" type="data" label="Choose FASTQ file"/>

diff --git a/lib/galaxy/datatypes/converters/fastqgz_to_fastq.xml b/lib/galaxy/datatypes/converters/fastqgz_to_fastq.xml
@@ -1,5 +1,5 @@
 <tool id="CONVERTER_fastqgz_to_fastq" name="Convert fastq.gz files to fastq" version="1.0.0" hidden="true">
-  <command>gzip -dcf $input1 > $output1</command>
+  <command>gzip -dcf '$input1' > '$output1'</command>
   <inputs>
     <page>
         <param format="fastq.gz" name="input1" type="data" label="Choose FASTQ file"/>

diff --git a/lib/galaxy/datatypes/converters/fastqilluminagz_to_fastqillumina.xml b/lib/galaxy/datatypes/converters/fastqilluminagz_to_fastqillumina.xml
@@ -1,5 +1,5 @@
 <tool id="CONVERTER_fastqilluminagz_to_fastqillumina" name="Convert fastqillumina.gz files to fastqillumina" version="1.0.0" hidden="true">
-  <command>gzip -dcf $input1 > $output1</command>
+  <command>gzip -dcf '$input1' > '$output1'</command>
   <inputs>
     <page>
         <param format="fastqillumina.gz" name="input1" type="data" label="Choose FASTQ file"/>

diff --git a/lib/galaxy/datatypes/converters/fastqsangergz_to_fastqsanger.xml b/lib/galaxy/datatypes/converters/fastqsangergz_to_fastqsanger.xml
@@ -1,5 +1,5 @@
 <tool id="CONVERTER_fastqsangergz_to_fastqsanger" name="Convert fastqsanger.gz files to fastqsanger" version="1.0.0" hidden="true">
-  <command>gzip -dcf $input1 > $output1</command>
+  <command>gzip -dcf '$input1' > '$output1'</command>
   <inputs>
     <page>
         <param format="fastqsanger.gz" name="input1" type="data" label="Choose FASTQ file"/>

diff --git a/lib/galaxy/datatypes/converters/fastqsolexagz_to_fastqsolexa.xml b/lib/galaxy/datatypes/converters/fastqsolexagz_to_fastqsolexa.xml
@@ -1,5 +1,5 @@
 <tool id="CONVERTER_fastqsolexagz_to_fastqsolexa" name="Convert fastqsolexa.gz files to fastqsolexa" version="1.0.0" hidden="true">
-  <command>gzip -dcf $input1 > $output1</command>
+  <command>gzip -dcf '$input1' > '$output1'</command>
   <inputs>
     <page>
         <param format="fastqsolexa.gz" name="input1" type="data" label="Choose FASTQ file"/>