[Swift-commit] r7156 - SwiftApps/Swift-MapRed/mapred_combiner_V4

yadunandb at ci.uchicago.edu yadunandb at ci.uchicago.edu
Mon Oct 14 00:52:53 CDT 2013


Author: yadunandb
Date: 2013-10-14 00:52:53 -0500 (Mon, 14 Oct 2013)
New Revision: 7156

Modified:
   SwiftApps/Swift-MapRed/mapred_combiner_V4/LAB_RECORDS
   SwiftApps/Swift-MapRed/mapred_combiner_V4/client.c
   SwiftApps/Swift-MapRed/mapred_combiner_V4/combiner.sh
   SwiftApps/Swift-MapRed/mapred_combiner_V4/multiple.xml
   SwiftApps/Swift-MapRed/mapred_combiner_V4/reducer_template.sh
   SwiftApps/Swift-MapRed/mapred_combiner_V4/run.sh
   SwiftApps/Swift-MapRed/mapred_combiner_V4/server.c
   SwiftApps/Swift-MapRed/mapred_combiner_V4/swiftreduce.swift
Log:
Added local combiner functionality

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/LAB_RECORDS
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/LAB_RECORDS	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/LAB_RECORDS	2013-10-14 05:52:53 UTC (rev 7156)
@@ -3205,3 +3205,1224 @@
 ACTUAL COUNT  : 100000
 EXPECTED COUNT: 100000
 ---------------------------------------------
+================================================================
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
+Warning: Parameter reducer, on line 53, shadows variable of same name on line 30
+Could not open: 20.xml
+Execution failed:
+	
+		Could not find sites file: 20.xml
+		
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+user 3.09
+sys 0.15
+chunks 20 filesize 10 site 20 type Swift+Chirp
+---------------------------------------------
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+---------------------------------------------
+================================================================
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+Warning: Parameter all_map, on line 47, shadows variable of same name on line 43
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
+Warning: Parameter reducer, on line 53, shadows variable of same name on line 30
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+
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+---------------------------------------------
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+EXPECTED COUNT: 4000000
+---------------------------------------------
+================================================================
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
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+
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+---------------------------------------------
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+EXPECTED COUNT: 4000000
+---------------------------------------------
+================================================================
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
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+
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+chunks 20 filesize 50 site multiple type Swift+Chirp
+---------------------------------------------
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+ACTUAL COUNT  : 
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+---------------------------------------------
+================================================================
+RUNTYPE :SWIFT+Chirp (With local combiners), SITE:multiple, CHUNKS:20 X FILESIZE:1 
+Warning: Parameter reducer, on line 47, shadows variable of same name on line 30
+Warning: Parameter all_map, on line 47, shadows variable of same name on line 43
+Warning: Parameter reducer, on line 50, shadows variable of same name on line 30
+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
+Warning: Parameter reducer, on line 53, shadows variable of same name on line 30
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+
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+---------------------------------------------
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+---------------------------------------------
+================================================================
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+Warning: Parameter all_map, on line 47, shadows variable of same name on line 43
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
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+
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+---------------------------------------------
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+================================================================
+RUNTYPE :SWIFT+Chirp (With local combiners), SITE:multiple, CHUNKS:20 X FILESIZE:5 
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+Warning: Parameter all_map, on line 50, shadows variable of same name on line 43
+Warning: Parameter reducer, on line 53, shadows variable of same name on line 30
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+---------------------------------------------
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+---------------------------------------------
+================================================================
+RUNTYPE :SWIFT+Chirp (With local combiners), SITE:multiple, CHUNKS:20 X FILESIZE:5 
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+Warning: The @ syntax for function invocation is deprecated
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+chunks 20 filesize 5 site multiple type Swift+Chirp
+================================================================
+RUNTYPE :SWIFT+Chirp (With local combiners), SITE:multiple, CHUNKS:10 X FILESIZE:10 
+Swift trunk swift-r7138 cog-r3806
+RunID: 20131011-1945-ofqi9iv3
+Warning: The @ syntax for function invocation is deprecated
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+chunks 10 filesize 10 site multiple type Swift+Chirp
+---------------------------------------------
+COUNT does *NOT* match expected records
+ACTUAL COUNT  : 
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+---------------------------------------------
+================================================================
+RUNTYPE :SWIFT+Chirp (With local combiners), SITE:multiple, CHUNKS:10 X FILESIZE:50 
+Swift trunk swift-r7138 cog-r3806
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+Warning: The @ syntax for function invocation is deprecated
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+Progress:  time: Mon, 14 Oct 2013 05:45:00 +0000
+Progress:  time: Mon, 14 Oct 2013 05:45:15 +0000  Submitted:1  Finished successfully:9
+Progress:  time: Mon, 14 Oct 2013 05:45:30 +0000  Submitted:1  Finished successfully:9
+Progress:  time: Mon, 14 Oct 2013 05:45:41 +0000  Stage in:1  Finished successfully:9
+Progress:  time: Mon, 14 Oct 2013 05:46:00 +0000  Submitted:1  Finished successfully:10
+Progress:  time: Mon, 14 Oct 2013 05:46:30 +0000  Submitted:1  Finished successfully:10
+Progress:  time: Mon, 14 Oct 2013 05:47:00 +0000  Submitted:1  Finished successfully:10
+Progress:  time: Mon, 14 Oct 2013 05:47:01 +0000  Stage out:1  Finished successfully:10
+Final status: Mon, 14 Oct 2013 05:47:02 +0000  Finished successfully:13
+real 124.14
+user 250.64
+sys 58.16
+chunks 10 filesize 1 site multiple type Swift+Chirp
+---------------------------------------------
+COUNT does *NOT* match expected records
+ACTUAL COUNT  : 
+EXPECTED COUNT: 100000
+---------------------------------------------

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/client.c
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/client.c	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/client.c	2013-10-14 05:52:53 UTC (rev 7156)
@@ -103,7 +103,7 @@
     fprintf(stderr, "File size: %d\n", file_size);
     fseek(f_in, 0, SEEK_SET);
 
-    buffer = (char *) malloc ((sizeof (char)) * (file_size+2));
+    buffer = (char *) malloc ((sizeof (char)) * (file_size+1));
     fread(buffer, file_size, 1, f_in);
     buffer[file_size] = '\0';
     fclose(f_in);

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/combiner.sh
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/combiner.sh	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/combiner.sh	2013-10-14 05:52:53 UTC (rev 7156)
@@ -37,4 +37,4 @@
 echo "Combiner [./exec_client $NODE $NODE.sh]" 1>&2
 cat $NODE.sh 1>&2
 ./exec_client $NODE $NODE.sh
-exit 0     
+exit 0

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/multiple.xml
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/multiple.xml	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/multiple.xml	2013-10-14 05:52:53 UTC (rev 7156)
@@ -14,20 +14,20 @@
     <filesystem provider="local"/>
     <workdirectory>/tmp/yadunand</workdirectory>
   </pool>
-  
+
  <pool handle="beagle">
     <execution provider="coaster" jobmanager="ssh-cl:pbs" url="login4.beagle.ci.uchicago.edu"/>
-    <profile namespace="globus" key="jobsPerNode">24</profile>
+    <profile namespace="globus" key="jobsPerNode">4</profile>
     <profile namespace="globus" key="lowOverAllocation">100</profile>
     <profile namespace="globus" key="highOverAllocation">100</profile>
     <profile namespace="globus" key="providerAttributes">pbs.aprun;pbs.mpp;depth=24</profile>
     <profile namespace="globus" key="maxtime">1200</profile>
     <profile namespace="globus" key="maxWalltime">00:10:00</profile>
-    <profile namespace="globus" key="queue">development</profile>
+    <profile namespace="globus" key="queue">development</profile> 
     <profile namespace="globus" key="userHomeOverride">/lustre/beagle/yadunandb/swiftwork</profile>
     <profile namespace="globus" key="slots">1</profile>
-    <profile namespace="globus" key="maxnodes">1</profile>
-    <profile namespace="globus" key="nodeGranularity">1</profile>
+    <profile namespace="globus" key="maxnodes">4</profile>
+    <profile namespace="globus" key="nodeGranularity">4</profile>
     <profile namespace="karajan" key="jobThrottle">4.80</profile>
     <profile namespace="karajan" key="initialScore">10000</profile>
     <!-- <profile namespace="karajan" key="workerLoggingLevel">trace</profile> -->
@@ -83,14 +83,14 @@
     <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">1</profile>
+    <profile namespace="globus" key="jobsPerNode">4</profile>
     <profile namespace="globus" key="maxtime">1200</profile>
     <profile namespace="globus" key="maxWalltime">00:10:00</profile>
     <profile namespace="globus" key="highOverAllocation">100</profile>
     <profile namespace="globus" key="lowOverAllocation">100</profile>
-    <profile namespace="globus" key="slots">4</profile>
-    <profile namespace="globus" key="maxNodes">1</profile>
-    <profile namespace="globus" key="nodeGranularity">1</profile>
+    <profile namespace="globus" key="slots">1</profile>
+    <profile namespace="globus" key="maxNodes">4</profile>
+    <profile namespace="globus" key="nodeGranularity">4</profile>
     <profile namespace="karajan" key="jobThrottle">.64</profile>
     <profile namespace="karajan" key="initialScore">10000</profile>
     <workdirectory>/tmp/yadunand</workdirectory>

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/reducer_template.sh
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/reducer_template.sh	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/reducer_template.sh	2013-10-14 05:52:53 UTC (rev 7156)
@@ -12,6 +12,7 @@
 HOSTNAME=$(hostname -f)
 if   [[ "$HOSTNAME" == *midway* ]]; then # On midway node
     EXECSERVER=/scratch/midway/yadunand/bin/exec_server
+    EXECCLIENT=/scratch/midway/yadunand/bin/exec_client
     LOGFOLDER=/scratch/midway/yadunand
     FOLDER="/dev/shm"
     HOSTID="midway_$HOSTNAME"
@@ -19,6 +20,7 @@
 
 elif [[ "$HOSTNAME" == *nid* ]]; then    # On beagle node
     EXECSERVER=/lustre/beagle/yadunandb/bin/exec_server
+    EXECCLIENT=/lustre/beagle/yadunandb/bin/exec_client
     LOGFOLDER=/lustre/beagle/yadunandb/Swift-MapRed/
     FOLDER="/dev/shm"
     HOSTID="beagle_$HOSTNAME"
@@ -54,7 +56,6 @@
 
 plain ()
 {
-    #FILES=($(grep -h "$SITE" $*))
     ID=$1; shift
     IFS=$'\r\n' FILES=($(grep -h "$SITE" $*))
     echo "Matching files : ${FILES[*]}" 1>&2
@@ -68,6 +69,40 @@
     exit 0
 }
 
+
+local_combine()
+{
+    ID=$1; shift
+    #IFS=$'\r\n' FILES=($(grep -h "$SITE" $*))
+    LOCATIONS=($(awk '{ print $1 }' $* | grep $SITE | sort -u))
+    for LOCATION in ${LOCATIONS[*]}
+    do
+        Node=($(echo "$LOCATION" | sed 's/[^ ]*_//' ))
+        FILES=($(grep -h $Node $* | awk '{ print $2 }'))
+############## LOCAL COMBINER CODE ###################
+        cat <<EOF   > $Node.sh
+#!/bin/bash
+ID=$RANDOM
+FILES=(${FILES[*]})
+SITE=$SITE
+EOF
+        cat <<'EOF' >> $Node.sh
+#USER_REDUCE
+
+echo -e "$SITE"_"$(hostname -f) $(reduce ${FILES[*]})"
+EOF
+        chmod a+x $Node.sh;
+############# END LOCAL COMBINER #####################
+        #TODO: Move client with swift ?
+        # How does builds work on different architectures ?
+        cp $EXECCLIENT ./
+        ./exec_client $Node $Node.sh 1> $FOLDER/$LOCATION.$ID.imd &
+    done
+    wait
+    #cat $FOLDER/*.$ID.imd
+    plain $ID $FOLDER/*.$ID.imd
+}
+
 case "$CMD" in
     "naive")
         echo "Using naive reduce" 1>&2
@@ -75,8 +110,15 @@
         ;;
     "plain")
         echo "Using plain reduce" 1>&2
-        plain $ID ${FILES[*]};
+        plain $ID ${FILES[*]}
         ;;
+    "local")
+        echo "Using local combiners" 1>&2
+        local_combine $ID ${FILES[*]} #> $FOLDER/$ID.combine.results
+        #echo "Result from local_combines :" 1>&2
+        #cat $FOLDER/$ID.combine.results 1>&2
+        #plain $ID $FOLDER/$ID.combine.results
+        ;;
     *)
         echo "ERROR: Unknown reduction method requested" 1>&2
         ;;

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/run.sh
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/run.sh	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/run.sh	2013-10-14 05:52:53 UTC (rev 7156)
@@ -17,11 +17,11 @@
 
 if [ "$SITE" != "beagle" ]
 then
-    ./compile
+    #./compile
 #    cp exec_server /lustre/beagle/yadunandb/bin/
 #    cp exec_client /lustre/beagle/yadunandb/bin/
-    cp exec_client /scratch/midway/yadunand/bin/
-    cp exec_server /scratch/midway/yadunand/bin/
+    #cp exec_client /scratch/midway/yadunand/bin/
+    #cp exec_server /scratch/midway/yadunand/bin/
     echo "Skipping compile and copy"
 fi;
 #Call as check_error $? <ERR_CODE> <Error message>

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/server.c
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/server.c	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/server.c	2013-10-14 05:52:53 UTC (rev 7156)
@@ -165,6 +165,7 @@
 
       // TODO
       reply = (char *) malloc (2048);
+      memset(reply, '\0', 2048);
       reply_size = exec_string(buf, numbytes, reply);
       printf("Returning string of size %d \n%s\n", reply_size, reply);
 

Modified: SwiftApps/Swift-MapRed/mapred_combiner_V4/swiftreduce.swift
===================================================================
--- SwiftApps/Swift-MapRed/mapred_combiner_V4/swiftreduce.swift	2013-10-14 05:37:26 UTC (rev 7155)
+++ SwiftApps/Swift-MapRed/mapred_combiner_V4/swiftreduce.swift	2013-10-14 05:52:53 UTC (rev 7156)
@@ -14,9 +14,9 @@
     bash @run recsize stdout=@out stderr=@err;
 }
 
-app (fileptr out) aggregate (script aggr, fileptr map_results[])
+app (fileptr out) aggregate (script a, fileptr map_results[])
 {
-    bash @aggr @map_results stdout=@out;
+    bash @a @map_results stdout=@out;
 }
 
 int files = @toInt(@arg("files","0"));
@@ -78,8 +78,8 @@
 }
 */
 
-(redsite_out[0], redsite_err[0]) = reduce_bgl (reducer, "plain", all_map);
-(redsite_out[1], redsite_err[1]) = reduce_mid (reducer, "plain", all_map);
+//(redsite_out[0], redsite_err[0]) = reduce_bgl (reducer, "local", all_map);
+(redsite_out[1], redsite_err[1]) = reduce_mid (reducer, "local", all_map);
 file final_out <"final_result">;
 file final_err <"final_errors">;
 (final_out, final_err) = reduce_loc (reducer, "naive", redsite_out);




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