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/dports/databases/opentsdb/opentsdb-2.3.0/test/tools/
H A DTestFsck.java164 final byte[] qual1 = { 0x00, 0x07 }; in noErrors()
169 storage.addColumn(ROW, qual1, val1); in noErrors()
180 final byte[] qual1 = { 0x00, 0x07 }; in noErrorsMultipleRows()
185 storage.addColumn(ROW, qual1, val1); in noErrorsMultipleRows()
226 final byte[] qual1 = { 0x00, 0x07 }; in noErrorsAnnotation()
233 storage.addColumn(ROW, qual1, val1); in noErrorsAnnotation()
297 final byte[] qual1 = { 0x00, 0x07 }; in noErrorsCompacted()
331 final byte[] qual1 = { 0x00, 0x07 }; in noErrorsCompactedMix()
375 storage.getColumn(ROW, qual1)); in singleValueCompacted()
1552 MockBase.concatByteArrays(qual1, val1, qual1, val1, qual2, val2)); in appendDupe()
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/dports/databases/opentsdb/opentsdb-2.3.0/test/core/
H A DTestRowSeq.java77 final byte[] qual1 = { 0x00, 0x07 }; in setRow()
93 final byte[] qual1 = { 0x00, 0x07 }; in setRowSalted()
108 final byte[] qual1 = { 0x00, 0x07 }; in setRowAlreadySet()
125 final byte[] qual1 = { 0x00, 0x07 }; in addRowMergeLater()
156 final byte[] qual1 = { 0x00, 0x07 }; in addRowMergeLaterSalted()
190 final byte[] qual1 = { 0x00, 0x37 }; in addRowMergeEarlier()
221 final byte[] qual1 = { 0x00, 0x37 }; in addRowMergeEarlierSalted()
255 final byte[] qual1 = { 0x00, 0x07 }; in addRowMergeMiddle()
298 final byte[] qual1 = { 0x00, 0x07 }; in addRowMergeMiddleSalted()
345 final byte[] qual1 = { 0x00, 0x07 }; in addRowMergeDuplicateLater()
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H A DTestCompactionQueue.java259 kvs.add(makekv(qual1, val1)); in twoCellRow()
303 kvs.add(makekv(qual1, val1)); in twoCellRowWAnnotation()
402 kvs.add(makekv(qual1, val1)); in twoCellRowMS()
424 kvs.add(makekv(qual1, val1)); in sortMsAndS()
452 kvs.add(makekv(qual1, val1)); in secondsOutOfOrder()
482 kvs.add(makekv(qual1, val1)); in msOutOfOrder()
509 kvs.add(makekv(qual1, val1)); in secondAndMs()
533 kvs.add(makekv(qual1, val1)); in secondAndMsWAnnotation()
558 kvs.add(makekv(qual1, val1)); in msSameAsSecond()
572 kvs.add(makekv(qual1, val1)); in msSameAsSecondFix()
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H A DTestSpan.java79 final byte[] qual1 = { 0x00, 0x07 }; in addRow()
98 final byte[] qual1 = { 0x00, 0x07 }; in addRowSalted()
125 final byte[] qual1 = { 0x00, 0x07 }; in addRowBadKeyLength()
143 final byte[] qual1 = { 0x00, 0x07 }; in addRowMissMatchedMetric()
161 final byte[] qual1 = { 0x00, 0x07 }; in addRowMissMatchedTagk()
179 final byte[] qual1 = { 0x00, 0x07 }; in addRowMissMatchedTagv()
197 final byte[] qual1 = { 0x00, 0x07 }; in addRowOutOfOrder()
222 final byte[] qual1 = { 0x00, 0x07 }; in timestampNormalized()
291 final byte[] qual1 = { 0x00, 0x07 }; in iterateNormalizedMS()
389 final byte[] qual1 = { 0x00, 0x07 }; in lastTimestampInRow()
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H A DTestInternal.java44 final byte[] qual1 = { 0x00, 0x07 }; in extractDataPointsFixQualifierFlags()
52 row.add(makekv(qual1, val1)); in extractDataPointsFixQualifierFlags()
68 final byte[] qual1 = { 0x00, 0x0F }; in extractDataPointsFixFloatingPointValue()
76 row.add(makekv(qual1, val1)); in extractDataPointsFixFloatingPointValue()
92 final byte[] qual1 = { 0x00, 0x0F }; in extractDataPointsFixFloatingPointValueCorrupt()
100 row.add(makekv(qual1, val1)); in extractDataPointsFixFloatingPointValueCorrupt()
109 final byte[] qual1 = { 0x00, 0x27 }; in extractDataPointsMixSecondsMs()
117 row.add(makekv(qual1, val1)); in extractDataPointsMixSecondsMs()
129 final byte[] qual1 = { 0x00, 0x07 }; in extractDataPointsWithNonDataColumns()
137 row.add(makekv(qual1, val1)); in extractDataPointsWithNonDataColumns()
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/dports/biology/bowtie/bowtie-1.3.1/scripts/
H A Dreconcile_alignments_pe.pl210 my $qual1 = $s1[5];
218 $qual1 = reverse $qual1;
234 $hits_hash{$read_name}{qual1} = $fasta ? "" : $qual1;
255 my ($name1, $seq1, $qual1) = get_read($UN1);
281 $un_hash{$name}{qual1} = $qual1;
328 $max_hash{$name}{qual1} = $qual1;
347 my ($name1, $seq1, $qual1) = get_read($AL1);
369 $al_hash{$name}{qual1} = $qual1;
427 $un_hash{$name}{qual1} eq $qual1 ||
441 $max_hash{$name}{qual1} eq $qual1 ||
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H A Dfastq_to_tabbed.pl98 my $qual1 = <M1>;
99 chomp($qual1);
102 print "$name1\t$seq1\t$qual1\t$seq2\t$qual2\n" unless $shuffle;
103 push @output, "$name1\t$seq1\t$qual1\t$seq2\t$qual2\n" if $shuffle;
/dports/databases/hbase/hbase-1.2.1/hbase-common/src/test/java/org/apache/hadoop/hbase/
H A DTestCellComparator.java40 byte[] qual1 = Bytes.toBytes("qual1"); field in TestCellComparator
47 KeyValue kv1 = new KeyValue(row1, fam1, qual1, val); in testCompareCells()
48 KeyValue kv2 = new KeyValue(row2, fam1, qual1, val); in testCompareCells()
51 kv1 = new KeyValue(row1, fam2, qual1, val); in testCompareCells()
52 kv2 = new KeyValue(row1, fam1, qual1, val); in testCompareCells()
55 kv1 = new KeyValue(row1, fam1, qual1, 1l, val); in testCompareCells()
56 kv2 = new KeyValue(row1, fam1, qual1, 2l, val); in testCompareCells()
59 kv1 = new KeyValue(row1, fam1, qual1, 1l, Type.Put); in testCompareCells()
63 kv1 = new KeyValue(row1, fam1, qual1, 1l, Type.Put); in testCompareCells()
67 kv1 = new KeyValue(row1, fam1, qual1, 1l, Type.Put); in testCompareCells()
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/dports/biology/bedtools/bedtools2-2.30.0/src/bamToFastq/
H A DbamToFastq.cpp116 string qual1, qual2; in WritePairs() local
132 qual1 = alignments[0].Qualities; in WritePairs()
137 reverseSequence(qual1); in WritePairs()
152 reverseSequence(qual1); in WritePairs()
188 reverseSequence(qual1); in WritePairs()
220 reverseSequence(qual1); in WritePairs()
244 *_fq1 << qual1 << endl; in WritePairs()
295 string qual1 = bam1.Qualities; in PairedFastqUseTags() local
298 reverseSequence(qual1); in PairedFastqUseTags()
311 *_fq1 << qual1 << endl; in PairedFastqUseTags()
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/dports/security/py-stix2/cti-python-stix2-2.1.0/stix2/equivalence/pattern/compare/
H A Dobservation.py26 def repeats_cmp(qual1, qual2): argument
30 return generic_constant_cmp(qual1.times_to_repeat, qual2.times_to_repeat)
33 def within_cmp(qual1, qual2): argument
38 qual1.number_of_seconds, qual2.number_of_seconds,
42 def startstop_cmp(qual1, qual2): argument
48 (qual1.start_time, qual1.stop_time),
/dports/databases/opentsdb/opentsdb-2.3.0/src/core/
H A DColumnDatapointIterator.java72 final byte qual1 = qualifier[1]; in checkForFixup()
73 if (Internal.floatingPointValueToFix(qual1, value)) { in checkForFixup()
74 value = Internal.fixFloatingPointValue(qual1, value); in checkForFixup()
77 final byte lenByte = Internal.fixQualifierFlags(qual1, value.length); in checkForFixup()
78 if (lenByte != qual1) { in checkForFixup()
/dports/databases/hbase/hbase-1.2.1/hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/
H A DTestAtomicOperation.java131 a.add(fam1, qual1, Bytes.toBytes(v1)); in testAppend()
135 a.add(fam1, qual1, Bytes.toBytes(v2)); in testAppend()
175 assertICV(row, fam1, qual1, expectedTotal); in testIncrementMultiThreads()
241 inc.addColumn(fam1, qual1, amount); in run()
286 a.add(fam1, qual1, val); in testAppendMultiThreads()
365 p.add(fam1, qual1, value1); in testRowMutationMultiThreads()
374 d.deleteColumns(fam1, qual1, ts); in testRowMutationMultiThreads()
458 p.add(fam1, qual1, value1); in testMultiRowMutationMultiThreads()
462 d.deleteColumns(fam1, qual1, ts); in testMultiRowMutationMultiThreads()
467 d.deleteColumns(fam1, qual1, ts); in testMultiRowMutationMultiThreads()
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H A DTestParallelPut.java68 static final byte[] qual1 = Bytes.toBytes("qual1"); field in TestParallelPut
117 put.add(fam1, qual1, Bytes.toBytes(value)); in testPut()
120 assertGet(this.region, row, fam1, qual1, Bytes.toBytes(value)); in testPut()
217 put.add(fam1, qual1, value); in run()
223 assertGet(this.region, rowkey, fam1, qual1, value); in run()
/dports/databases/hbase/hbase-1.2.1/hbase-server/src/test/java/org/apache/hadoop/hbase/io/encoding/
H A DTestPrefixTree.java62 private final static byte[] qual1 = Bytes.toBytes("qf_1"); field in TestPrefixTree
88 put.addColumn(fam, qual1, Bytes.toBytes("c1-value")); in testHBASE11728()
91 put.addColumn(fam, qual1, Bytes.toBytes("c1-value")); in testHBASE11728()
177 .put(new Put(Bytes.toBytes("obj" + (2900 + i))).addColumn(fam, qual1, Bytes.toBytes(i)));
179 region.put(new Put(Bytes.toBytes("obj299")).addColumn(fam, qual1, Bytes.toBytes("whatever")));
180 region.put(new Put(Bytes.toBytes("obj29")).addColumn(fam, qual1, Bytes.toBytes("whatever")));
181 region.put(new Put(Bytes.toBytes("obj2")).addColumn(fam, qual1, Bytes.toBytes("whatever")));
182 region.put(new Put(Bytes.toBytes("obj3")).addColumn(fam, qual1, Bytes.toBytes("whatever")));
/dports/www/webtrees/webtrees-1.7.18/webtrees/app/
H A DDate.php42 public $qual1; variable in Fisharebest\\Webtrees\\Date
69 $this->qual1 = $match[1];
74 $this->qual1 = $match[1];
238 $q1 = $this->qual1;
239 $d1 = $this->date1->format($date_format, $this->qual1);
253 $d1tmp = $d1conv->format($date_format, $this->qual1);
427 $tmp->qual1 = $qualifier;
532 switch ($a->qual1) {
546 switch ($b->qual1) {
/dports/devel/ppl/ppl-1.2/src/
H A Dchecked_defs.hh127 #define PPL_DECLARE_FUN2_0_0(name, ret_type, qual1, type1, qual2, type2) \ argument
133 inline ret_type PPL_U(name)(PPL_U(qual1) PPL_U(type1)& arg1, \
139 #define PPL_DECLARE_FUN2_0_1(name, ret_type, qual1, type1, \ argument
146 inline ret_type PPL_U(name)(PPL_U(qual1) PPL_U(type1)& arg1, \
153 #define PPL_DECLARE_FUN2_0_2(name, ret_type, qual1, type1, qual2, type2, \ argument
160 inline ret_type PPL_U(name)(PPL_U(qual1) PPL_U(type1)& arg1, \
167 #define PPL_DECLARE_FUN3_0_1(name, ret_type, qual1, type1, \ argument
174 inline ret_type PPL_U(name)(PPL_U(qual1) PPL_U(type1)& arg1, \
184 qual1, type1, qual2, type2, qual3, type3, \ argument
284 #define PPL_SPECIALIZE_FUN2_0_0(name, func, ret_type, qual1, type1, \ argument
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/dports/biology/fastp/fastp-0.23.2/src/
H A Dbasecorrector.cpp27 const char* qual1 = r1->mQuality->c_str(); in correctByOverlapAnalysis() local
42 if(qual1[p1] >= GOOD_QUAL && qual2[p2] <= BAD_QUAL) { in correctByOverlapAnalysis()
45 (*r2->mQuality)[p2] = qual1[p1]; in correctByOverlapAnalysis()
51 } else if(qual2[p2] >= GOOD_QUAL && qual1[p1] <= BAD_QUAL) { in correctByOverlapAnalysis()
H A Dread.cpp223 const char* qual1 = mLeft->mQuality->c_str(); in fastMerge() local
243 if((qual1[offset+i]>='?' && qual2[i]<='0') || (qual1[offset+i]<='0' && qual2[i]>='?')){ in fastMerge()
270 if(qual1[offset+i]>='?' && qual2[i]<='0'){ in fastMerge()
272 mergedQual[offset+i] = qual1[offset+i]; in fastMerge()
279 mergedQual[offset+i] = qual1[offset+i] + qual2[i] - 33; in fastMerge()
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/seq_io/
H A Dtest_stream_write_fasta.h118 CharString qual1 = "!!!!!"; in SEQAN_DEFINE_TEST() local
121 writeRecord(outStream, meta1, seq1, qual1, Fastq()); in SEQAN_DEFINE_TEST()
168 CharString qual1 = "!!!!!"; in SEQAN_DEFINE_TEST() local
171 writeRecord(outStream, meta1, seq1, qual1, Fastq(), SequenceOutputOptions(70, true)); in SEQAN_DEFINE_TEST()
/dports/www/webtrees20/webtrees-2.0.19/webtrees/app/
H A DDate.php52 public $qual1 = ''; variable in Fisharebest\\Webtrees\\Date
79 $this->qual1 = $match[1];
84 $this->qual1 = $match[1];
275 $q1 = $this->qual1;
276 $d1 = $this->date1->format($date_format, $this->qual1);
290 $d1tmp = $d1conv->format($date_format, $this->qual1);
467 $tmp->qual1 = $qualifier;
620 switch ($a->qual1) {
634 switch ($b->qual1) {
/dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/libs/sra/
H A Dreader-illumina.c81 const SRAReaderColumn* qual1; member
98 options |= qual1 ? eQual1 : 0; in IlluminaReaderInit()
111 …(rc = SRAReader_FindColData(&self->dad, &IlluminaReader_master_columns_desc[5], &me->qual1, NULL))… in IlluminaReaderInit()
119 if( self->qual1 != NULL ) { in IlluminaReaderInit()
131 … bool read, bool qual1, bool qual4, bool intensity, bool noise, bool signal, bool qseq, in IlluminaReaderMake() argument
136 rc = IlluminaReaderInit(*self, read, qual1, qual4, intensity, noise, signal, qseq); in IlluminaReaderMake()
370 } else if( self->qual1 == NULL || self->qual1->size == 0 ) { in IlluminaReaderQuality1()
377 p = self->qual1->base; in IlluminaReaderQuality1()
384 p = self->qual1->base; in IlluminaReaderQuality1()
549 if( self->qual1 && self->qual1->size ) {
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/dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/libs/sra/
H A Dreader-illumina.c81 const SRAReaderColumn* qual1; member
98 options |= qual1 ? eQual1 : 0; in IlluminaReaderInit()
111 …(rc = SRAReader_FindColData(&self->dad, &IlluminaReader_master_columns_desc[5], &me->qual1, NULL))… in IlluminaReaderInit()
119 if( self->qual1 != NULL ) { in IlluminaReaderInit()
131 … bool read, bool qual1, bool qual4, bool intensity, bool noise, bool signal, bool qseq, in IlluminaReaderMake() argument
136 rc = IlluminaReaderInit(*self, read, qual1, qual4, intensity, noise, signal, qseq); in IlluminaReaderMake()
370 } else if( self->qual1 == NULL || self->qual1->size == 0 ) { in IlluminaReaderQuality1()
377 p = self->qual1->base; in IlluminaReaderQuality1()
384 p = self->qual1->base; in IlluminaReaderQuality1()
549 if( self->qual1 && self->qual1->size ) {
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/dports/biology/abyss/abyss-2.3.1/Align/
H A Dmergepairs.cc119 string qual1 = rec1.qual; in mergeReads() local
137 copy(qual1.begin(), qual1.begin() + overlap.overlap_t_pos, in mergeReads()
150 out_qual[pos] = max(qual1[pos], rc_qual2[i]); in mergeReads()
153 qual1[pos], rc_qual2[i]); in mergeReads()
154 out_qual[pos] = min(qual1[pos], rc_qual2[i]); in mergeReads()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/oligofar/
H A Dcquery.hpp50 …CQuery( CSeqCoding::ECoding coding, const string& id, const string& data1, const string& qual1, co…
105 …void x_InitColorspace( const string& id, const string& data1, const string& qual1, const string& d…
134 …ing::ECoding coding, const string& id, const string& data1, const string& qual1, const string& dat… in CQuery() argument
140 …case CSeqCoding::eCoding_ncbiqna: x_InitNcbiqna( id, data1 + qual1, data2 + qual2, base ); break; … in CQuery()
142 …case CSeqCoding::eCoding_colorsp: x_InitColorspace( id, data1, qual1, data2, qual2, base ); break;… in CQuery()
148 inline void CQuery::x_InitColorspace( const string& id, const string& data1, const string& qual1, c… in x_InitColorspace() argument
156 if( qual1.length() ) m_flags |= fStoresQuality0; in x_InitColorspace()
158 int q0 = qual1.length(); in x_InitColorspace()
176 for( unsigned i = 0, j = m_offset[0] + m_length[0]; i < qual1.length(); ) in x_InitColorspace()
177 m_data[j++] = qual1[i] + (33 - base); // SAM standard is 33 in x_InitColorspace()
/dports/biology/bbmap/bbmap/current/shared/
H A DTrimRead.java173 qual1=r.quality; in TrimRead()
175 assert(bases1!=null || qual1==null) : "\n"+new String(bases1)+"\n"+new String(qual1)+"\n"; in TrimRead()
176 …assert(bases1==null || qual1==null || bases1.length==qual1.length) : "\n"+new String(bases1)+"\n"+… in TrimRead()
229 qual2=qual1; in trim()
232 …qual2=((qual1==null || (trimLeft+trimRight>=qual1.length)) ? null : KillSwitch.copyOfRange(qual1, … in trim()
496 r.quality=qual1; in untrim()
818 public final byte[] qual1;

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