2025-11-20 22:02
ftp://ftp.de.debian.org/debian/pool/main/d/delly/delly_1.7.2.orig.tar.xz
cppcheck-options: --library=posix --library=gnu --library=bsd --library=boost --library=zlib  --inconclusive --enable=style,information --inline-suppr --template=daca2 --disable=missingInclude --suppress=unmatchedSuppression --check-library --debug-warnings --suppress=autoNoType --suppress=valueFlowBailout --suppress=bailoutUninitVar --suppress=symbolDatabaseWarning --suppress=normalCheckLevelConditionExpressions -D__GNUC__ --platform=unix64 -j1
platform: Linux-6.8.0-87-generic-x86_64-with-glibc2.39
python: 3.12.3
client-version: 1.3.69
compiler: g++ (Ubuntu 14.2.0-4ubuntu2~24.04) 14.2.0
cppcheck: head 2.18.0
head-info: 5374cd3 (2025-11-20 15:35:39 +0100)
count: 192 190
elapsed-time: 36.6 46.0
head-timing-info:

old-timing-info:

head results:
delly-1.7.2/src/version.h:13:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/version.h:28:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/version.h:40:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/tags.h:207:28: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_FREVERSE [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/tags.h:225:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_FREVERSE [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:107:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:153:51: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:195:7: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:283:60: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable binary [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:302:7: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:339:24: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:430:38: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_CMATCH [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:444:38: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_CMATCH [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:476:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_FREAD1 [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:591:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable npos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:624:72: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable in [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:760:29: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_FREAD2 [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/bolog.h:78:24: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable bcf_gt_missing [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/align.h:119:21: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/align.h:137:21: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/align.h:177:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/align.h:209:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/needle.h:19:24: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/needle.h:56:24: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/msa.h:98:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/msa.h:118:21: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/msa.h:193:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/msa.h:245:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/split.h:424:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/coverage.h:164:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/coverage.h:318:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/assemble.h:29:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/assemble.h:141:27: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable extents [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/assemble.h:416:104: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable second [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/assemble.h:627:104: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable second [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/assemble.h:782:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gfa.h:77:62: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable in [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gfa.h:196:21: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable endl [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gaf.h:53:23: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable bam_cigar_table [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gaf.h:66:57: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable npos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gaf.h:100:28: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable npos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/pangenome.h:36:32: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable first [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/pangenome.h:50:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/pangenome.h:250:64: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable in [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:26:26: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_FREVERSE [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:60:36: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable seqpos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:114:36: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable seqpos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:148:36: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable seqpos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:182:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable refidx [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:226:36: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable seqpos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:280:31: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable id [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:325:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:497:77: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable id [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:623:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/junction.h:679:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cluster.h:307:11: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cluster.h:462:55: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable tid [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/shortpe.h:77:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/shortpe.h:311:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:16:51: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_HT_INT [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:20:53: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_HT_INT [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:27:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_UN_INFO [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:44:25: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_UN_FMT [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:64:64: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_DT_ID [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:69:63: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_DT_ID [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:81:20: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable bcf_int8_missing [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:85:20: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable bcf_int16_missing [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:89:20: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable bcf_int32_missing [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:98:31: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_DT_ID [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:185:21: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_UN_INFO [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/modvcf.h:388:41: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/delly.h:102:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/delly.h:255:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/filter.h:82:29: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_HL_INFO [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/filter.h:369:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/classify.h:80:29: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_HL_INFO [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/classify.h:367:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:90:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:212:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:251:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:576:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:783:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:897:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/merge.h:949:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/genotype.h:35:38: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_CSOFT_CLIP [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/genotype.h:49:33: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_CMATCH [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/genotype.h:67:33: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BAM_CMATCH [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/genotype.h:130:92: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable out [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/tegua.h:91:11: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/tegua.h:253:11: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/bed.h:39:48: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable in [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/bed.h:83:48: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable in [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/scan.h:57:76: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cov [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/scan.h:88:7: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/scan.h:255:32: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cov [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/gcbias.h:81:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cnv.h:118:42: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable coverage [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cnv.h:189:37: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable coverage [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cnv.h:272:41: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable coverage [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cnv.h:434:23: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable BCF_UN_INFO [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/cnv.h:547:43: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/coral.h:90:7: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/coral.h:556:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/asmode.h:74:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/asmode.h:179:19: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable svid [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/asmode.h:215:10: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/asmode.h:409:9: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/asmode.h:466:11: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/delly.cpp:27:8: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/delly.cpp:54:12: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable cerr [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/util.h:70:5: warning:inconclusive: Member variable 'ReadCount::leftRC' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/util.h:70:5: warning:inconclusive: Member variable 'ReadCount::rc' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/util.h:70:5: warning:inconclusive: Member variable 'ReadCount::rightRC' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:24:5: warning:inconclusive: Member variable 'Link::fromfwd' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:24:5: warning:inconclusive: Member variable 'Link::tofwd' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:24:5: warning:inconclusive: Member variable 'Link::from' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:24:5: warning:inconclusive: Member variable 'Link::to' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::fromfwd' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::tofwd' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::from' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::to' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::support' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/gfa.h:40:5: warning:inconclusive: Member variable 'LinkCargo::mapq' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/modvcf.h:136:15: style:inconclusive: Technically the member function 'torali::cstyle_str::operator()' can be const. [functionConst]
delly-1.7.2/src/threadpool.h:24:5: style: Struct 'ThreadPool' has a constructor with 1 argument that is not explicit. [noExplicitConstructor]
delly-1.7.2/src/util.h:777:25: style: Condition 'processedNumPairs<maxNumAlignments' is always true [knownConditionTrueFalse]
delly-1.7.2/src/util.h:762:148: note: Assuming that condition 'processedNumPairs>=maxNumAlignments' is not redundant
delly-1.7.2/src/util.h:777:25: note: Condition 'processedNumPairs<maxNumAlignments' is always true
delly-1.7.2/src/filter.h:206:16: style: Condition '!germline' is always true [knownConditionTrueFalse]
delly-1.7.2/src/filter.h:182:9: note: Assuming that condition 'germline' is not redundant
delly-1.7.2/src/filter.h:206:16: note: Condition '!germline' is always true
delly-1.7.2/src/classify.h:157:19: style: Condition '!germline' is always true [knownConditionTrueFalse]
delly-1.7.2/src/classify.h:154:12: note: Assuming that condition 'germline' is not redundant
delly-1.7.2/src/classify.h:157:19: note: Condition '!germline' is always true
delly-1.7.2/src/cnv.h:244:20: style: Condition 'bpmax.empty()' is always true [knownConditionTrueFalse]
delly-1.7.2/src/modvcf.h:392:20: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:393:18: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:394:20: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:395:19: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:396:20: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:397:22: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:398:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:399:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:400:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:401:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/modvcf.h:402:22: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:552:22: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:553:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:554:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:555:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:556:24: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cnv.h:557:20: style: C-style pointer casting [cstyleCast]
delly-1.7.2/src/cluster.h:233:15: style: Same expression used in consecutive assignments of 'ciposlow' and 'pos'. [duplicateAssignExpression]
delly-1.7.2/src/cluster.h:234:16: note: Same expression used in consecutive assignments of 'ciposlow' and 'pos'.
delly-1.7.2/src/cluster.h:233:15: note: Same expression used in consecutive assignments of 'ciposlow' and 'pos'.
delly-1.7.2/src/cluster.h:234:16: style: Same expression used in consecutive assignments of 'pos' and 'ciposhigh'. [duplicateAssignExpression]
delly-1.7.2/src/cluster.h:235:15: note: Same expression used in consecutive assignments of 'pos' and 'ciposhigh'.
delly-1.7.2/src/cluster.h:234:16: note: Same expression used in consecutive assignments of 'pos' and 'ciposhigh'.
delly-1.7.2/src/cluster.h:236:15: style: Same expression used in consecutive assignments of 'ciendlow' and 'pos2'. [duplicateAssignExpression]
delly-1.7.2/src/cluster.h:237:16: note: Same expression used in consecutive assignments of 'ciendlow' and 'pos2'.
delly-1.7.2/src/cluster.h:236:15: note: Same expression used in consecutive assignments of 'ciendlow' and 'pos2'.
delly-1.7.2/src/cluster.h:237:16: style: Same expression used in consecutive assignments of 'pos2' and 'ciendhigh'. [duplicateAssignExpression]
delly-1.7.2/src/cluster.h:238:15: note: Same expression used in consecutive assignments of 'pos2' and 'ciendhigh'.
delly-1.7.2/src/cluster.h:237:16: note: Same expression used in consecutive assignments of 'pos2' and 'ciendhigh'.
delly-1.7.2/src/cnv.h:376:15: style: Same expression used in consecutive assignments of 'cel' and 'ceh'. [duplicateAssignExpression]
delly-1.7.2/src/cnv.h:377:15: note: Same expression used in consecutive assignments of 'cel' and 'ceh'.
delly-1.7.2/src/cnv.h:376:15: note: Same expression used in consecutive assignments of 'cel' and 'ceh'.
delly-1.7.2/src/split.h:543:30: style: The scope of the variable 'semiglobal' can be reduced. [variableScope]
delly-1.7.2/src/split.h:544:19: style: The scope of the variable 'lnsc' can be reduced. [variableScope]
delly-1.7.2/src/pangenome.h:37:13: style: The scope of the variable 'readStart' can be reduced. [variableScope]
delly-1.7.2/src/merge.h:397:11: style: The scope of the variable 'tid' can be reduced. [variableScope]
delly-1.7.2/src/merge.h:681:13: style: The scope of the variable 'tid' can be reduced. [variableScope]
delly-1.7.2/src/genotype.h:60:14: style: The scope of the variable 'rp' can be reduced. [variableScope]
delly-1.7.2/src/genotype.h:61:14: style: The scope of the variable 'sp' can be reduced. [variableScope]
delly-1.7.2/src/cnv.h:239:13: style: The scope of the variable 'biggestWin' can be reduced. [variableScope]
delly-1.7.2/src/cnv.h:549:14: style: The scope of the variable 'cnvid' can be reduced. [variableScope]
delly-1.7.2/src/asmode.h:275:11: style: The scope of the variable 'computeAlign' can be reduced. [variableScope]
delly-1.7.2/src/assemble.h:633:16: style: Local variable 'lenI' shadows outer variable [shadowVariable]
delly-1.7.2/src/assemble.h:593:14: note: Shadowed declaration
delly-1.7.2/src/assemble.h:633:16: note: Shadow variable
delly-1.7.2/src/cnv.h:214:15: style: Local variable 'cn' shadows outer variable [shadowVariable]
delly-1.7.2/src/cnv.h:194:14: note: Shadowed declaration
delly-1.7.2/src/cnv.h:214:15: note: Shadow variable
delly-1.7.2/src/coverage.h:417:13: style: Variable 'job' can be declared as reference to const [constVariableReference]
delly-1.7.2/src/merge.h:869:82: performance: Searching before insertion is not necessary. Instead of 'contigMap[chrName]=numseq++' consider using 'contigMap.try_emplace(chrName, numseq++);'. [stlFindInsert]
delly-1.7.2/src/merge.h:1007:10: performance: Ineffective call of function 'substr' because a prefix of the string is assigned to itself. Use resize() or pop_back() instead. [uselessCallsSubstr]
delly-1.7.2/src/util.h:520:18: style: Consider using std::count_if algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/assemble.h:99:44: style: Consider using std::distance algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/assemble.h:101:44: style: Consider using std::distance algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/junction.h:46:0: style: Consider using std::find_if algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/delly.h:120:33: style: Consider using std::find_if algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/merge.h:381:30: warning: Array index -1 is out of bounds. [negativeContainerIndex]
delly-1.7.2/src/merge.h:372:20: note: Assignment 'idx=-1', assigned value is -1
delly-1.7.2/src/merge.h:373:41: note: Assuming condition is false
delly-1.7.2/src/merge.h:381:30: note: Negative array index
delly-1.7.2/src/merge.h:664:31: warning: Array index -1 is out of bounds. [negativeContainerIndex]
delly-1.7.2/src/merge.h:655:22: note: Assignment 'idx=-1', assigned value is -1
delly-1.7.2/src/merge.h:656:43: note: Assuming condition is false
delly-1.7.2/src/merge.h:664:31: note: Negative array index
delly-1.7.2/src/merge.h:826:29: warning: Array index -1 is out of bounds. [negativeContainerIndex]
delly-1.7.2/src/merge.h:818:20: note: Assignment 'idx=-1', assigned value is -1
delly-1.7.2/src/merge.h:819:41: note: Assuming condition is false
delly-1.7.2/src/merge.h:826:29: note: Negative array index
delly-1.7.2/src/edlib.cpp:74:96: debug: valueFlowConditionExpressions bailout: Skipping function due to incomplete variable npos [valueFlowBailoutIncompleteVar]
delly-1.7.2/src/edlib.cpp:49:5: warning:inconclusive: Member variable 'Block::P' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/edlib.cpp:49:5: warning:inconclusive: Member variable 'Block::M' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/edlib.cpp:49:5: warning:inconclusive: Member variable 'Block::score' is not initialized in the constructor. [uninitMemberVar]
delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a copy constructor which is recommended since it has dynamic memory/resource management. [noCopyConstructor]
delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a operator= which is recommended since it has dynamic memory/resource management. [noOperatorEq]
delly-1.7.2/src/edlib.cpp:62:5: style: Class 'EqualityDefinition' has a constructor with 1 argument that is not explicit. [noExplicitConstructor]
delly-1.7.2/src/edlib.cpp:341:12: warning: If memory allocation fails, then there is a possible null pointer dereference: cigar_ [nullPointerOutOfMemory]
delly-1.7.2/src/edlib.cpp:340:46: note: Assuming allocation function fails
delly-1.7.2/src/edlib.cpp:340:39: note: Assignment 'cigar_=static_cast<char*>(malloc(cigar->size()*sizeof(char)))', assigned value is 0
delly-1.7.2/src/edlib.cpp:341:12: note: Null pointer dereference
delly-1.7.2/src/edlib.cpp:139:58: style:inconclusive: Function 'edlibAlign' argument 1 names different: declaration 'query' definition 'queryOriginal'. [funcArgNamesDifferent]
delly-1.7.2/src/edlib.h:243:21: note: Function 'edlibAlign' argument 1 names different: declaration 'query' definition 'queryOriginal'.
delly-1.7.2/src/edlib.cpp:139:58: note: Function 'edlibAlign' argument 1 names different: declaration 'query' definition 'queryOriginal'.
delly-1.7.2/src/edlib.cpp:140:58: style:inconclusive: Function 'edlibAlign' argument 3 names different: declaration 'target' definition 'targetOriginal'. [funcArgNamesDifferent]
delly-1.7.2/src/edlib.h:244:21: note: Function 'edlibAlign' argument 3 names different: declaration 'target' definition 'targetOriginal'.
delly-1.7.2/src/edlib.cpp:140:58: note: Function 'edlibAlign' argument 3 names different: declaration 'target' definition 'targetOriginal'.
delly-1.7.2/src/edlib.cpp:449:18: style: Clarify calculation precedence for '%' and '?'. [clarifyCalculation]
delly-1.7.2/src/edlib.cpp:465:63: performance: Function parameter 'block' should be passed by const reference. [passedByValue]
delly-1.7.2/src/edlib.cpp:484:42: performance: Function parameter 'block' should be passed by const reference. [passedByValue]
delly-1.7.2/src/edlib.cpp:501:49: performance: Function parameter 'block' should be passed by const reference. [passedByValue]
delly-1.7.2/src/edlib.cpp:518:52: performance: Function parameter 'block' should be passed by const reference. [passedByValue]
delly-1.7.2/src/edlib.cpp:521:0: style: Consider using std::any_of algorithm instead of a raw loop. [useStlAlgorithm]
delly-1.7.2/src/edlib.cpp:627:37: style: Variable 'Peq_c' is assigned a value that is never used. [unreadVariable]
delly-1.7.2/src/edlib.cpp:809:18: style: Variable 'hout' is assigned a value that is never used. [unreadVariable]
diff:
2.18.0 delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a copy constructor which is recommended since it has dynamic memory/resource allocation(s). [noCopyConstructor]
head delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a copy constructor which is recommended since it has dynamic memory/resource management. [noCopyConstructor]
2.18.0 delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a operator= which is recommended since it has dynamic memory/resource allocation(s). [noOperatorEq]
head delly-1.7.2/src/edlib.cpp:28:10: warning: Struct 'AlignmentData' does not have a operator= which is recommended since it has dynamic memory/resource management. [noOperatorEq]
head delly-1.7.2/src/split.h:543:30: style: The scope of the variable 'semiglobal' can be reduced. [variableScope]
head delly-1.7.2/src/split.h:544:19: style: The scope of the variable 'lnsc' can be reduced. [variableScope]


DONE