| /dports/biology/mothur/mothur-1.46.1/source/commands/ |
| H A D | clustersplitcommand.cpp | 636 util.openOutputFile(listFileName, outList); in mergeLists()
637 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in mergeLists()
786 string listFileName = ""; in clusterClassicFile() local
882 return listFileName; in clusterClassicFile()
963 return listFileName; in runOptiCluster()
1121 return listFileName; in runVsearchCluster()
1131 string listFileName = ""; in clusterFile() local
1205 return listFileName; in clusterFile()
1252 return listFileName; in clusterFile()
1267 return listFileName; in clusterFile()
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| H A D | mgclustercommand.cpp | 207 …m->mothurOut(listFileName); m->mothurOutEndLine(); outputNames.push_back(listFileName); outputType… in execute()
304 listFileName = getOutputFileName("list", variables); in runOptiCluster()
313 util.openOutputFile(listFileName, listFile); in runOptiCluster()
314 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in runOptiCluster()
477 listFileName = getOutputFileName("list", variables); in runMothurCluster()
510 util.openOutputFile(listFileName, listFile); in runMothurCluster()
514 …mothurRemove(rabundFileName); util.mothurRemove(sabundFileName); } util.mothurRemove(listFileName); in runMothurCluster()
537 …mothurRemove(rabundFileName); util.mothurRemove(sabundFileName); } util.mothurRemove(listFileName); in runMothurCluster()
552 …mothurRemove(rabundFileName); util.mothurRemove(sabundFileName); } util.mothurRemove(listFileName); in runMothurCluster()
601 …mothurRemove(rabundFileName); util.mothurRemove(sabundFileName); } util.mothurRemove(listFileName); in runMothurCluster()
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| H A D | clustercommand.cpp | 416 string listFileName = getOutputFileName("list", variables); in runVsearchCluster() local
417 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in runVsearchCluster()
420 util.openOutputFile(listFileName, out); in runVsearchCluster()
626 util.openOutputFile(listFileName, listFile); in runMothurCluster()
627 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in runMothurCluster()
801 string listFileName = fileroot+ tag + ".list"; in runOptiCluster() local
804 util.openOutputFile(listFileName, listFile); in runOptiCluster()
805 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in runOptiCluster()
937 string listFileName = fileroot+ tag + ".list"; in runUniqueCluster() local
940 util.openOutputFile(listFileName, listFile); in runUniqueCluster()
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| H A D | clusterdoturcommand.cpp | 189 string listFileName = getOutputFileName("list", variables); in execute() local
198 util.openOutputFile(listFileName, listFile); in execute()
199 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in execute()
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| H A D | phylotypecommand.cpp | 183 string listFileName = getOutputFileName("list", variables); in execute() local
197 util.openOutputFile(listFileName, outList); in execute()
198 outputNames.push_back(listFileName); outputTypes["list"].push_back(listFileName); in execute()
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| H A D | clusterfitcommand.cpp | 413 util.openOutputFile(listFileName, listFile); in execute()
419 listFiles.push_back(listFileName); in execute()
420 bestListFileName = listFileName; in execute()
574 string listFileName = fileroot+ tag + ".list"; in runDenovoOptiCluster() local
575 util.openOutputFile(listFileName, listFile); in runDenovoOptiCluster()
585 listFiles.push_back(listFileName); in runDenovoOptiCluster()
593 string listFileName = fileroot+ tag + ".list"; in runDenovoOptiCluster() local
595 return listFileName; in runDenovoOptiCluster()
851 string listFileName = fileroot+ tag + ".list"; in runRefOptiCluster() local
852 util.openOutputFile(listFileName, listFile); in runRefOptiCluster()
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| H A D | mgclustercommand.h | 55 …e, countfile, overlapFile, distFile, sabundFileName, rabundFileName, listFileName, metric, initia… variable
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| H A D | shhhseqscommand.cpp | 167 string listFileName = filenames["list"][0]; in driver() local
174 …tControl_pressed()) { util.mothurRemove(distFileName); util.mothurRemove(listFileName); return 0; } in driver()
179 if (m->getControl_pressed()) { util.mothurRemove(listFileName); return 0; } in driver()
184 noise.getListData(listFileName, cutOff, otuData, otuFreq, otuBySeqLookUp); in driver()
185 util.mothurRemove(listFileName); in driver()
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| H A D | shhhercommand.cpp | 396 … string listFileName = flowFileName.substr(0,flowFileName.find_last_of('.')) + ".shhh.list"; in driver() local
397 cluster(listFileName, distFileName, namesFileName); in driver()
410 …int numOTUs = getOTUData(numSeqs, listFileName, otuData, cumNumSeqs, nSeqsPerOTU, aaP, aaI, seqNum… in driver()
416 util.mothurRemove(listFileName); in driver()
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| /dports/java/openjdk17/jdk17u-jdk-17.0.1-12-1/src/java.base/share/classes/jdk/internal/misc/ |
| H A D | CDS.java | 208 private static native void dumpClassList(String listFileName); in dumpClassList() argument
272 String listFileName = archiveFileName + ".classlist"; in dumpSharedArchive() local
273 File listFile = new File(listFileName); in dumpSharedArchive()
277 dumpClassList(listFileName); in dumpSharedArchive()
286 cmds.add("-XX:SharedClassListFile=" + listFileName); in dumpSharedArchive()
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| /dports/multimedia/avidemux-cli/avidemux_2.7.6/avidemux_core/ADM_coreUtils/src/ |
| H A D | pref_gen.py | 134 listFileName=str("../include/")+re.sub(r'.conf',r'_list.h',inputFile) variable
137 print("Generating "+listFileName)
138 listFile=open(listFileName,'w')
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| /dports/multimedia/avidemux/avidemux_2.7.6/avidemux_core/ADM_coreUtils/src/ |
| H A D | pref_gen.py | 134 listFileName=str("../include/")+re.sub(r'.conf',r'_list.h',inputFile) variable
137 print("Generating "+listFileName)
138 listFile=open(listFileName,'w')
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| /dports/multimedia/avidemux-qt5/avidemux_2.7.6/avidemux_core/ADM_coreUtils/src/ |
| H A D | pref_gen.py | 134 listFileName=str("../include/")+re.sub(r'.conf',r'_list.h',inputFile) variable
137 print("Generating "+listFileName)
138 listFile=open(listFileName,'w')
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| /dports/multimedia/avidemux-plugins/avidemux_2.7.6/avidemux_core/ADM_coreUtils/src/ |
| H A D | pref_gen.py | 134 listFileName=str("../include/")+re.sub(r'.conf',r'_list.h',inputFile) variable
137 print("Generating "+listFileName)
138 listFile=open(listFileName,'w')
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| /dports/devel/tpasm/tpasm1.11/ |
| H A D | tpasm.c | 581 if(!listFileName||(listFile=OpenTextOutputFile(listFileName))) in HandleAssembly()
627 if(listFileName) // if list file was desired, then close it in HandleAssembly()
658 listFileName=NULL; in InitGlobals()
803 listFileName=argv[(*currentArg)++]; in DoListName()
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| H A D | globals.c | 28 *listFileName; variable
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| H A D | globals.h | 24 *listFileName;
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| /dports/math/jacop/jacop-4.8.0/src/test/java/org/jacop/ |
| H A D | MinizincBasedTestsHelper.java | 66 protected static final String listFileName = "list.txt"; field in MinizincBasedTestsHelper
137 …try (FileReader file = new FileReader(relativePath + timeCategory + listFileName); BufferedReader … in fileReader()
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| /dports/lang/mono/mono-5.10.1.57/mcs/class/System.Web/Test/System.Web.Caching/ |
| H A D | CacheItemPriorityQueueTest.cs | 100 void RunTest (string testsFileName, string listFileName) in RunTest() argument
104 string listPath = Path.Combine (dataDir, listFileName); in RunTest()
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| /dports/devel/duplo/duplo_0.2.0_src/ |
| H A D | Duplo.h | 51 …Duplo(const std::string& listFileName, unsigned int minBlockSize, unsigned int minChars, bool igno…
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| H A D | Duplo.cpp | 31 Duplo::Duplo(const std::string& listFileName, unsigned int minBlockSize, unsigned int minChars, boo… in Duplo() argument
32 m_listFileName(listFileName), in Duplo()
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| /dports/lang/mono/mono-5.10.1.57/external/corert/tests/CoreCLR/runtest/ |
| H A D | runtest.sh | 855 local listFileName=$1
857 if [ ! -f "$listFileName" ]
859 exit_with_error "$errorSource" "Test directories file not found at $listFileName"
861 testDirectories=($(read_array "$listFileName"))
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| /dports/biology/mothur/mothur-1.46.1/source/ |
| H A D | seqnoise.cpp | 138 int seqNoise::getListData(string listFileName, double cutOff, vector<int>& otuData, vector<int>& ot… in getListData() argument
142 util.openInputFile(listFileName, listFile); in getListData()
218 InputData input(listFileName, "list", nullVector); in getListData()
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| /dports/java/openjdk17/jdk17u-jdk-17.0.1-12-1/src/hotspot/share/prims/ |
| H A D | jvm.cpp | 3678 JVM_ENTRY(void, JVM_DumpClassListToFile(JNIEnv *env, jstring listFileName))
3681 Handle file_handle(THREAD, JNIHandles::resolve_non_null(listFileName));
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