[Swift-commit] r7328 - SwiftApps/Swift-MapRed/blast

[ketan at ci.uchicago.edu]

Author: ketan
Date: 2013-11-25 09:56:11 -0600 (Mon, 25 Nov 2013)
New Revision: 7328

Modified:
   SwiftApps/Swift-MapRed/blast/blast.swift
   SwiftApps/Swift-MapRed/blast/sites.midway.xml
Log:
blast 

Modified: SwiftApps/Swift-MapRed/blast/blast.swift
===================================================================
--- SwiftApps/Swift-MapRed/blast/blast.swift	2013-11-25 15:55:55 UTC (rev 7327)
+++ SwiftApps/Swift-MapRed/blast/blast.swift	2013-11-25 15:56:11 UTC (rev 7328)
@@ -12,7 +12,7 @@
 type query;
 type output;
 
-string num_partitions=@arg("n", "50");
+string num_partitions=@arg("n", "600");
 string program_name=@arg("p", "blastp");
 fastaseq dbin <single_file_mapper;file=@arg("d", "nr")>;
 query query_file <single_file_mapper;file=@arg("i", "sequence.seq")>;

Modified: SwiftApps/Swift-MapRed/blast/sites.midway.xml
===================================================================
--- SwiftApps/Swift-MapRed/blast/sites.midway.xml	2013-11-25 15:55:55 UTC (rev 7327)
+++ SwiftApps/Swift-MapRed/blast/sites.midway.xml	2013-11-25 15:56:11 UTC (rev 7328)
@@ -5,21 +5,21 @@
     <profile namespace="globus" key="queue">westmere</profile>
     <!-- <profile namespace="globus" key="queue">sandyb</profile> -->
     <!-- <profile namespace="globus" key="queue">amd</profile> -->
-    <profile namespace="globus" key="jobsPerNode">8</profile>
+    <profile namespace="globus" key="jobsPerNode">12</profile>
     <profile namespace="globus" key="maxtime">2400</profile>
     <profile namespace="globus" key="maxWalltime">00:20:00</profile>
     <profile namespace="globus" key="highOverAllocation">100</profile>
     <profile namespace="globus" key="lowOverAllocation">100</profile>
     <profile namespace="globus" key="slots">1</profile>
-    <profile namespace="globus" key="maxNodes">2</profile>
-    <profile namespace="globus" key="nodeGranularity">2</profile>
-    <profile namespace="karajan" key="jobThrottle">.1</profile>
+    <profile namespace="globus" key="maxNodes">8</profile>
+    <profile namespace="globus" key="nodeGranularity">8</profile>
+    <profile namespace="karajan" key="jobThrottle">3.99</profile>
     <profile namespace="karajan" key="initialScore">10000</profile>
     <workdirectory>/tmp/maheshwari/swift.work</workdirectory>
   </pool>
    <pool handle="localhost">
      <execution provider="local" />
-     <profile namespace="karajan" key="jobThrottle">0</profile>
+     <profile namespace="karajan" key="jobThrottle">0.07</profile>
      <profile namespace="karajan" key="initialScore">10000</profile>
      <filesystem provider="local"/>
      <workdirectory>/tmp/swift.work</workdirectory>