/dports/science/elmerfem/elmerfem-release-9.0/fem/src/ |
H A D | LinearForms.F90 | 66 REAL(KIND=dp) CONTIG, INTENT(INOUT) :: G(:,:) 67 REAL(KIND=dp) CONTIG, INTENT(IN), OPTIONAL :: alpha(:) 146 REAL(KIND=dp) CONTIG, INTENT(INOUT) :: G(:,:) 269 REAL(KIND=dp) CONTIG, INTENT(INOUT) :: G(:,:) 270 REAL(KIND=dp) CONTIG, INTENT(IN), OPTIONAL :: alpha(:) 340 REAL(KIND=dp) CONTIG, INTENT(IN) :: U(:,:), weight(:) local 341 REAL(KIND=dp) CONTIG, INTENT(INOUT) :: G(:,:) 411 REAL(KIND=dp) CONTIG, INTENT(IN) :: U(:,:), F(:) local 412 REAL(KIND=dp) CONTIG, INTENT(INOUT) :: ProjectToU(:) 421 REAL(KIND=dp) CONTIG, INTENT(IN) :: U(:,:), F(:,:) local [all …]
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H A D | Smoothers.F90 | 325 REAL(KIND=dp) CONTIG :: x(:) local 342 REAL(KIND=dp) CONTIG :: x(:),y(:) local 359 COMPLEX(KIND=dp) CONTIG :: x(:),y(:) local 370 REAL(KIND=dp) CONTIG :: x(:), b(:) local 391 COMPLEX(KIND=dp) CONTIG :: x(:), b(:) local 406 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 428 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 565 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 606 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 1417 REAL(KIND=dp) CONTIG :: x(:),b(:) local [all …]
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H A D | Types.F90 | 162 INTEGER, POINTER CONTIG :: ia(:) => NULL(), ja(:) => NULL() 163 REAL(kind=dp), POINTER CONTIG :: aa(:) => NULL(), rhs(:) => NULL(), & 165 INTEGER, POINTER CONTIG :: IParm(:) => NULL() 191 INTEGER, POINTER CONTIG :: Rows(:)=>NULL(),Cols(:)=>NULL(), Diag(:)=>NULL() 194 REAL(KIND=dp), POINTER CONTIG :: BulkResidual(:)=>NULL() 196 REAL(KIND=dp), POINTER CONTIG :: Values(:)=>NULL(), ILUValues(:)=>NULL(), & 323 REAL(KIND=dp), POINTER CONTIG :: & 666 INTEGER, DIMENSION(:), POINTER CONTIG :: & 702 REAL(KIND=dp), POINTER CONTIG :: x(:)=>NULL() 703 REAL(KIND=dp), POINTER CONTIG :: y(:)=>NULL() [all …]
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H A D | ParallelEigenSolve.F90 | 114 REAL(KIND=dp), POINTER CONTIG :: x(:), b(:) 134 REAL(KIND=dp), POINTER CONTIG :: SaveRhs(:) 687 COMPLEX(KIND=dp), POINTER CONTIG :: x(:), b(:) 1260 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 1281 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 1339 REAL(KIND=dp) CONTIG :: x(:),b(:),r(:) local 1345 REAL(KIND=dp), POINTER CONTIG :: Mx(:),Mb(:),Mr(:) 1412 REAL(KIND=dp) CONTIG :: x(:) local 1425 REAL(KIND=dp) CONTIG :: x(:),y(:) local 1436 REAL(KIND=dp) CONTIG :: x(:), b(:) local [all …]
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H A D | H1Basis.F90 | 85 INTEGER, DIMENSION(:), POINTER CONTIG :: flatdir 203 INTEGER, DIMENSION(:), POINTER CONTIG :: flatdir 230 INTEGER, DIMENSION(:), POINTER CONTIG :: flatmap 289 INTEGER, DIMENSION(:), POINTER CONTIG :: flatmap 565 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax 597 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax 848 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax 880 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax 1214 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax 1245 INTEGER, DIMENSION(:) CONTIG, INTENT(IN) :: pmax [all …]
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/dports/biology/gatk/gatk-4.2.0.0/scripts/funcotator/testing/ |
H A D | getGencodeGenesForVcfVariants.sh | 154 CONTIG=$( echo "${line}" | awk '{print $1}' ) 155 if [[ $CONTIG != chr* ]] && [[ "${REF}" == "hg19" ]] ; then 156 CONTIG="chr${CONTIG}" 159 ${SCRIPTDIR}/getGeneFromGenomicCoordinates.sh ${REF} ${CONTIG} ${START} ${START}
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H A D | getGencodeSequencesForVcfVariants.sh | 160 CONTIG=$( echo "${line}" | awk '{print $1}' ) 161 if [[ $CONTIG != chr* ]] && [[ "${REF}" == "hg19" ]] ; then 162 CONTIG="chr${CONTIG}" 165 ${SCRIPTDIR}/getGeneFromGenomicCoordinates.sh ${REF} ${CONTIG} ${START} ${START}
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H A D | createSimpleGencodeDataSourceFromVariants.sh | 212 CONTIG=$( echo ${variant} | awk '{print $1}' ) 214 …wk "{ if (((\$1 == \"${CONTIG}\") || (\"chr\"\$1 == \"${CONTIG}\" ) || (\$1 == \"chr${CONTIG}\" ) …
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H A D | getGeneFromGenomicCoordinates.sh | 107 CONTIG=$2 121 awk "{ if (\$1 == \"${CONTIG}\" && \$4 <= ${START} && \$5 >= ${END}) {print} }" ${geneList}
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/dports/math/py-numpy/numpy-1.20.3/numpy/core/src/umath/ |
H A D | loops_unary_fp.dispatch.c.src | 78 #define CONTIG 0 92 * #STYPE = CONTIG, NCONTIG, CONTIG, NCONTIG# 93 * #DTYPE = CONTIG, CONTIG, NCONTIG, NCONTIG# 109 #if @STYPE@ == CONTIG 121 #if @DTYPE@ == CONTIG 130 #if @STYPE@ == CONTIG 144 #if @DTYPE@ == CONTIG
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/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/contamination/ |
H A D | MinorAlleleFractionRecord.java | 77 dataLine.set(MinorAlleleFractionTableColumn.CONTIG.toString(), segment.getContig()) in composeLine() 91 final String contig = dataLine.get(MinorAlleleFractionTableColumn.CONTIG); in createRecord() 100 CONTIG("contig"), enumConstant 116 …public static final TableColumnCollection COLUMNS = new TableColumnCollection(CONTIG, START, END, …
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/dports/biology/emboss/EMBOSS-6.6.0/doc/programs/master/emboss/apps/inc/ |
H A D | infoassembly.usage | 23 CONTIG LENGTH Mean_QUAL #READS Max DEPTH Mean_DEPTH %GC 53 CONTIG LENGTH Mean_QUAL #READS Max DEPTH Mean_DEPTH %GC 82 CONTIG LENGTH Mean_QUAL #READS Max DEPTH Mean_DEPTH %GC 111 CONTIG LENGTH Mean_QUAL #READS Max DEPTH Mean_DEPTH %GC
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/dports/devel/plan9port/plan9port-1f098efb7370a0b28306d10681e21883fb1c1507/src/cmd/eqn/ |
H A D | eqn.y | 1 %term CONTIG QTEXT SPACE THIN TAB 48 | CONTIG { text(CONTIG, (char *)$1); } 136 text : CONTIG
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Core/src/datatype/ |
H A D | DNAInfo.cpp | 64 const QString DNAInfo::CONTIG = "CONTIG"; member in U2::DNAInfo 91 if (vm.contains(CONTIG)) { in getContig() 92 QVariant v = vm.value(CONTIG); in getContig()
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/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/annotator/ |
H A D | ReadPosRankSumTestUnitTest.java | 27 private static final String CONTIG = "1"; field in ReadPosRankSumTestUnitTest 42 ….alleles(Arrays.asList(REF, ALT)).chr(CONTIG).start(position).stop(position).genotypes(testGC).mak… in makeVC() 49 read.setPosition(CONTIG, start); in makeRead() 119 read.setPosition(CONTIG, start); in testIsUsableRead() 192 …w VariantContextBuilder().alleles(Arrays.asList(REF, ALT_INSERTION)).chr(CONTIG).start(start-1).st… in testLeadingInsertion()
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H A D | LikelihoodRankSumTestUnitTest.java | 27 private static final String CONTIG = "chr1"; field in LikelihoodRankSumTestUnitTest 44 read.setPosition(CONTIG, 1); in makeRead() 77 final VariantContext vc= makeVC(CONTIG, position, REF, ALT); in testReadPos()
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/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/annotator/allelespecific/ |
H A D | StrandBiasUtilsUnitTest.java | 13 private static final String CONTIG = "1"; field in StrandBiasUtilsUnitTest 24 ….alleles(Arrays.asList(REF, ALT)).chr(CONTIG).start(position).stop(position).genotypes(testGC).mak… in makeVC()
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/dports/textproc/heirloom-doctools/heirloom-doctools-160308/eqn/ |
H A D | e.y | 51 %token <str> CONTIG QTEXT SPACE THIN TAB 201 | CONTIG { text(CONTIG, (char *) $1); } 211 text : CONTIG
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/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/copynumber/formats/collections/ |
H A D | SimpleIntervalCollection.java | 25 CONTIG, enumConstant 33 final String contig = dataLine.get(SimpleIntervalTableColumn.CONTIG);
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H A D | AlleleFractionSegmentCollection.java | 25 CONTIG, enumConstant 34 final String contig = dataLine.get(AlleleFractionSegmentTableColumn.CONTIG);
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H A D | LinearCopyRatioCollection.java | 25 CONTIG, enumConstant 53 final String contig = dataLine.get(DenoisedLocatableCopyRatioTableColumn.CONTIG); in getLinearCopyRatioRecordFromDataLineDecoder()
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H A D | MultidimensionalSegmentCollection.java | 23 CONTIG, enumConstant 34 final String contig = dataLine.get(MultidimensionalSegmentTableColumn.CONTIG);
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H A D | CopyRatioSegmentCollection.java | 23 CONTIG, enumConstant 33 final String contig = dataLine.get(CopyRatioSegmentTableColumn.CONTIG);
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/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/validation/basicshortmutpileup/ |
H A D | BasicValidationResult.java | 146 dataLine.set(BasicValidationResultTableColumn.CONTIG.toString(), record.getContig()); in composeLine() 171 final String contig = dataLine.get(BasicValidationResultTableColumn.CONTIG); in createRecord() 196 CONTIG("CONTIG"), enumConstant 223 …public static final TableColumnCollection COLUMNS = new TableColumnCollection(CONTIG, START, END, …
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/dports/biology/gatk/gatk-4.2.0.0/src/main/resources/org/broadinstitute/hellbender/tools/funcotator/ |
H A D | simple_funcotator_seg_file.config | 6 # constants in LocatableFuncotationCreator. As of this writing: CONTIG, START, and END. 18 chr:CONTIG,contig,Chromosome,chrom,chromosome,Chrom,seqname,seqnames,CHROM,target_contig,segment_co…
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