spades: set tmp dir (galaxyproject#5949)

* spades: set tmp dir * spades: also use version suffix like all other `*spades*` tools
nilchia · Apr 15, 2024 · f53f7f2 · f53f7f2
1 parent 5a871a3
commit f53f7f2
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/tools/spades/macros.xml b/tools/spades/macros.xml
@@ -1,6 +1,6 @@
 <macros>
     <token name="@TOOL_VERSION@">3.15.5</token>
-    <token name="@VERSION_SUFFIX@">1</token>
+    <token name="@VERSION_SUFFIX@">2</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@TOOL_VERSION@">spades</requirement>
@@ -148,6 +148,7 @@ export OMP_THREAD_LIMIT=\${GALAXY_SLOTS:-4} &&
 <token name="@RESOURCES@"><![CDATA[
 -t \${GALAXY_SLOTS:-4}
 -m \$((\${GALAXY_MEMORY_MB:-8192}/1024))
+--tmp-dir \${TMPDIR}	
 ]]></token>
 
 <token name="@INPUT_READS_MAIN@"><![CDATA[

diff --git a/tools/spades/spades.xml b/tools/spades/spades.xml
@@ -1,4 +1,4 @@
-<tool id="spades" name="SPAdes" version="@TOOL_VERSION@+galaxy0" profile="20.01">
+<tool id="spades" name="SPAdes" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01">
     <description>genome assembler for genomes of regular and single-cell projects</description>
     <macros>
         <import>macros.xml</import>