| Paste number 322501: | pardre |
| Pasted by: | rekado |
| When: | 6 years, 15 hours ago |
| Share: | Tweet this! | http://paste.lisp.org/+6WUD |
| Channel: | None |
| Paste contents: |
diff -ur ParDRe-rel1.1.5*
diff -ur ParDRe-rel1.1.5/.cproject ParDRe-rel1.1.5.new/.cproject
--- ParDRe-rel1.1.5/.cproject 2015-12-21 13:02:38.000000000 +0100
+++ ParDRe-rel1.1.5.new/.cproject 2016-07-05 14:10:22.000000000 +0200
@@ -1,8 +1,8 @@
<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<?fileVersion 4.0.0?><cproject storage_type_id="org.eclipse.cdt.core.XmlProjectDescriptionStorage">
<storageModule moduleId="org.eclipse.cdt.core.settings">
- <cconfiguration id="0.1063792236">
- <storageModule buildSystemId="org.eclipse.cdt.managedbuilder.core.configurationDataProvider" id="0.1063792236" moduleId="org.eclipse.cdt.core.settings" name="Default">
+ <cconfiguration id="0.1124212066">
+ <storageModule buildSystemId="org.eclipse.cdt.managedbuilder.core.configurationDataProvider" id="0.1124212066" moduleId="org.eclipse.cdt.core.settings" name="Default">
<externalSettings/>
<extensions>
<extension id="org.eclipse.cdt.core.VCErrorParser" point="org.eclipse.cdt.core.ErrorParser"/>
@@ -14,23 +14,23 @@
</extensions>
</storageModule>
<storageModule moduleId="cdtBuildSystem" version="4.0.0">
- <configuration buildProperties="" description="" id="0.1063792236" name="Default" parent="org.eclipse.cdt.build.core.prefbase.cfg">
- <folderInfo id="0.1063792236." name="/" resourcePath="">
- <toolChain id="org.eclipse.cdt.build.core.prefbase.toolchain.1515125278" name="No ToolChain" resourceTypeBasedDiscovery="false" superClass="org.eclipse.cdt.build.core.prefbase.toolchain">
- <targetPlatform id="org.eclipse.cdt.build.core.prefbase.toolchain.1515125278.1242880487" name=""/>
- <builder id="org.eclipse.cdt.build.core.settings.default.builder.570926900" keepEnvironmentInBuildfile="false" managedBuildOn="false" name="Gnu Make Builder" superClass="org.eclipse.cdt.build.core.settings.default.builder"/>
- <tool id="org.eclipse.cdt.build.core.settings.holder.libs.347518546" name="holder for library settings" superClass="org.eclipse.cdt.build.core.settings.holder.libs"/>
- <tool id="org.eclipse.cdt.build.core.settings.holder.82023976" name="CUDA C" superClass="org.eclipse.cdt.build.core.settings.holder">
- <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.1424918997" languageId="com.nvidia.cuda.ide.editor.cudac" languageName="CUDA C" sourceContentType="com.nvidia.cuda.ide.cudac" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
+ <configuration buildProperties="" description="" id="0.1124212066" name="Default" parent="org.eclipse.cdt.build.core.prefbase.cfg">
+ <folderInfo id="0.1124212066." name="/" resourcePath="">
+ <toolChain id="org.eclipse.cdt.build.core.prefbase.toolchain.383755441" name="No ToolChain" resourceTypeBasedDiscovery="false" superClass="org.eclipse.cdt.build.core.prefbase.toolchain">
+ <targetPlatform id="org.eclipse.cdt.build.core.prefbase.toolchain.383755441.64028961" name=""/>
+ <builder id="org.eclipse.cdt.build.core.settings.default.builder.665305288" keepEnvironmentInBuildfile="false" managedBuildOn="false" name="Gnu Make Builder" superClass="org.eclipse.cdt.build.core.settings.default.builder"/>
+ <tool id="org.eclipse.cdt.build.core.settings.holder.libs.867303933" name="holder for library settings" superClass="org.eclipse.cdt.build.core.settings.holder.libs"/>
+ <tool id="org.eclipse.cdt.build.core.settings.holder.1856622227" name="CUDA C" superClass="org.eclipse.cdt.build.core.settings.holder">
+ <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.909738042" languageId="com.nvidia.cuda.ide.editor.cudac" languageName="CUDA C" sourceContentType="com.nvidia.cuda.ide.cudac" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
</tool>
- <tool id="org.eclipse.cdt.build.core.settings.holder.6574913" name="Assembly" superClass="org.eclipse.cdt.build.core.settings.holder">
- <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.1386917292" languageId="org.eclipse.cdt.core.assembly" languageName="Assembly" sourceContentType="org.eclipse.cdt.core.asmSource" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
+ <tool id="org.eclipse.cdt.build.core.settings.holder.725125478" name="Assembly" superClass="org.eclipse.cdt.build.core.settings.holder">
+ <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.724128993" languageId="org.eclipse.cdt.core.assembly" languageName="Assembly" sourceContentType="org.eclipse.cdt.core.asmSource" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
</tool>
- <tool id="org.eclipse.cdt.build.core.settings.holder.262515108" name="GNU C++" superClass="org.eclipse.cdt.build.core.settings.holder">
- <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.1691140733" languageId="org.eclipse.cdt.core.g++" languageName="GNU C++" sourceContentType="org.eclipse.cdt.core.cxxSource,org.eclipse.cdt.core.cxxHeader" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
+ <tool id="org.eclipse.cdt.build.core.settings.holder.1986690789" name="GNU C++" superClass="org.eclipse.cdt.build.core.settings.holder">
+ <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.732922424" languageId="org.eclipse.cdt.core.g++" languageName="GNU C++" sourceContentType="org.eclipse.cdt.core.cxxSource,org.eclipse.cdt.core.cxxHeader" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
</tool>
- <tool id="org.eclipse.cdt.build.core.settings.holder.1213540964" name="GNU C" superClass="org.eclipse.cdt.build.core.settings.holder">
- <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.452835573" languageId="org.eclipse.cdt.core.gcc" languageName="GNU C" sourceContentType="org.eclipse.cdt.core.cSource,org.eclipse.cdt.core.cHeader" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
+ <tool id="org.eclipse.cdt.build.core.settings.holder.549406725" name="GNU C" superClass="org.eclipse.cdt.build.core.settings.holder">
+ <inputType id="org.eclipse.cdt.build.core.settings.holder.inType.1364314318" languageId="org.eclipse.cdt.core.gcc" languageName="GNU C" sourceContentType="org.eclipse.cdt.core.cSource,org.eclipse.cdt.core.cHeader" superClass="org.eclipse.cdt.build.core.settings.holder.inType"/>
</tool>
</toolChain>
</folderInfo>
@@ -41,41 +41,44 @@
</cconfiguration>
</storageModule>
<storageModule moduleId="cdtBuildSystem" version="4.0.0">
- <project id="ParDRe-V5.null.640329154" name="ParDRe-V5"/>
+ <project id="ParDRe-rel1.1.5.null.1822510023" name="ParDRe-rel1.1.5"/>
</storageModule>
<storageModule moduleId="scannerConfiguration">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
- <scannerConfigBuildInfo instanceId="com.nvidia.cuda.ide.configuration.debug.457684223;com.nvidia.cuda.ide.configuration.debug.457684223.;nvcc.compiler.base.1486896679;nvcc.compiler.input.cpp.956304547">
- <autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId="com.nvidia.cuda.ide.build.NVCCPerProjectProfile"/>
- </scannerConfigBuildInfo>
<scannerConfigBuildInfo instanceId="0.1927259477">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="0.823736429">
+ <scannerConfigBuildInfo instanceId="com.nvidia.cuda.ide.configuration.debug.457684223;com.nvidia.cuda.ide.configuration.debug.457684223.;nvcc.compiler.base.1486896679;nvcc.compiler.input.c.198358939">
+ <autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId="com.nvidia.cuda.ide.build.NVCCPerProjectProfile"/>
+ </scannerConfigBuildInfo>
+ <scannerConfigBuildInfo instanceId="0.1063792236">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="0.1602656032">
+ <scannerConfigBuildInfo instanceId="0.1124212066">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
+ <scannerConfigBuildInfo instanceId="com.nvidia.cuda.ide.configuration.debug.457684223;com.nvidia.cuda.ide.configuration.debug.457684223.;nvcc.compiler.base.1486896679;nvcc.compiler.input.cpp.956304547">
+ <autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId="com.nvidia.cuda.ide.build.NVCCPerProjectProfile"/>
+ </scannerConfigBuildInfo>
<scannerConfigBuildInfo instanceId="com.nvidia.cuda.ide.configuration.debug.457684223;com.nvidia.cuda.ide.configuration.debug.457684223.;nvcc.compiler.base.1486896679;nvcc.compiler.input.cu.2021164641">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId="com.nvidia.cuda.ide.build.NVCCPerProjectProfile"/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="0.1773641691">
+ <scannerConfigBuildInfo instanceId="0.823736429">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="com.nvidia.cuda.ide.configuration.debug.457684223;com.nvidia.cuda.ide.configuration.debug.457684223.;nvcc.compiler.base.1486896679;nvcc.compiler.input.c.198358939">
- <autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId="com.nvidia.cuda.ide.build.NVCCPerProjectProfile"/>
+ <scannerConfigBuildInfo instanceId="0.1773641691">
+ <autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
<scannerConfigBuildInfo instanceId="0.629582981">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="0.1063792236">
+ <scannerConfigBuildInfo instanceId="0.553699542">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
<scannerConfigBuildInfo instanceId="0.620900899">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
- <scannerConfigBuildInfo instanceId="0.553699542">
+ <scannerConfigBuildInfo instanceId="0.1602656032">
<autodiscovery enabled="true" problemReportingEnabled="true" selectedProfileId=""/>
</scannerConfigBuildInfo>
</storageModule>
diff -ur ParDRe-rel1.1.5/PairedEnd.cpp ParDRe-rel1.1.5.new/PairedEnd.cpp
--- ParDRe-rel1.1.5/PairedEnd.cpp 2016-05-18 11:46:38.000000000 +0200
+++ ParDRe-rel1.1.5.new/PairedEnd.cpp 2016-07-06 12:15:02.000000000 +0200
@@ -210,6 +210,7 @@
}
}
}
+ fflush(NULL);
}
MPI::COMM_WORLD.Barrier();
}
diff -ur ParDRe-rel1.1.5/SingleEnd.cpp ParDRe-rel1.1.5.new/SingleEnd.cpp
--- ParDRe-rel1.1.5/SingleEnd.cpp 2016-05-18 11:47:07.000000000 +0200
+++ ParDRe-rel1.1.5.new/SingleEnd.cpp 2016-07-06 12:13:13.000000000 +0200
@@ -27,12 +27,12 @@
if(!myRank){
Utils::log("Process %d/%d: To print in %s\n", myRank, MPI::COMM_WORLD.Get_size(), outPath.c_str());
}
- if(myRank){
+ /*if(myRank){
outPath.append("_id");
outPath.append(to_string(myRank));
}
_parserOut = new SeqFileParser(options, outPath.c_str(), true, false);
- _parserOut->setFormat(_parser->getFormat());
+ _parserOut->setFormat(_parser->getFormat());*/
}
}
@@ -186,6 +186,7 @@
}
}
}
+ fflush(NULL);
}
MPI::COMM_WORLD.Barrier();
}
diff -ur ParDRe-rel1.1.5/Utils.cpp ParDRe-rel1.1.5.new/Utils.cpp
--- ParDRe-rel1.1.5/Utils.cpp 2015-11-17 16:16:54.000000000 +0100
+++ ParDRe-rel1.1.5.new/Utils.cpp 2016-05-27 14:03:38.000000000 +0200
@@ -62,5 +62,12 @@
}
uint64_t Utils::popcount(uint64_t v){
- return __builtin_popcount(v);
+ uint64_t b = (v & 0x5555555555555555LU) + (v >> 1 & 0x5555555555555555LU);
+ b = (b & 0x3333333333333333LU) + (b >> 2 & 0x3333333333333333LU);
+ b = b + (b >> 4) & 0x0F0F0F0F0F0F0F0FLU;
+ b = b + (b >> 8);
+ b = b + (b >> 16);
+ b = b + (b >> 32) & 0x0000007F;
+
+ return b;
}
This paste has no annotations.