star-2.7.10b
| ^~~~~~~
1 error generated.
In file included from Parameters_readFilesInit.cpp:1:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Parameters_readSAMheader.cpp:1:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Parameters_samAttributes.cpp:1:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Quantifications.cpp:1:
In file included from ./Quantifications.h:3:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlignChunk.cpp:1:
In file included from ./ReadAlignChunk.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlignChunk_mapChunk.cpp:1:
In file included from ./ReadAlignChunk.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlignChunk_processChunks.cpp:1:
In file included from ./ReadAlignChunk.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_CIGAR.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_alignBAM.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_assignAlignToWindow.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_calcCIGAR.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_chimericDetection.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_chimericDetectionOld.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_chimericDetectionOldOutput.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_chimericDetectionPEmerged.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_createExtendWindowsWithAlign.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_mapOneRead.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_mapOneReadSpliceGraph.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_mappedFilter.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_maxMappableLength2strands.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_multMapSelect.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_oneRead.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputAlignments.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputSpliceGraphSAM.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputTranscriptCIGARp.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputTranscriptSAM.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputTranscriptSJ.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_outputVariation.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_peOverlapMergeMap.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_quantTranscriptome.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/cram_samtools.o cram/cram_samtools.c
star-2.7.10b
1 error generated.
In file included from ReadAlign_stitchPieces.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/cram_stats.o cram/cram_stats.c
star-2.7.10b
In file included from ReadAlign_stitchWindowSeeds.cpp:3:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_storeAligns.cpp:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from ReadAlign_transformGenome.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/files.o cram/files.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/mFILE.o cram/mFILE.c
star-2.7.10b
In file included from ReadAlign_waspMap.cpp:1:
In file included from ./ReadAlign.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from STAR.cpp:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SequenceFuns.cpp:1:
In file included from ./SequenceFuns.h:7:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/open_trace_file.o cram/open_trace_file.c
star-2.7.10b
In file included from Solo.cpp:1:
In file included from ./Solo.h:3:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloBarcode.cpp:1:
In file included from ./SoloBarcode.h:3:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/pooled_alloc.o cram/pooled_alloc.c
star-2.7.10b
In file included from SoloBarcode_extractBarcode.cpp:1:
In file included from ./SoloBarcode.h:3:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/rANS_static.o cram/rANS_static.c
star-2.7.10b
In file included from SoloFeature.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_addBAMtags.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_cellFiltering.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_collapseUMI_Graph.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/sam_header.o cram/sam_header.c
star-2.7.10b
In file included from SoloFeature_collapseUMIall.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_countCBgeneUMI.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_countSmartSeq.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_countVelocyto.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_emptyDrops_CR.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_loadRawMatrix.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_outputResults.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_processRecords.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_quantTranscript.cpp:2:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_redistributeReadsByCB.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_statsOutput.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloFeature_sumThreads.cpp:1:
In file included from ./SoloFeature.h:8:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloRead.cpp:1:
In file included from ./SoloRead.h:4:
In file included from ./SoloReadBarcode.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloReadBarcode.cpp:1:
In file included from ./SoloReadBarcode.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o cram/string_alloc.o cram/string_alloc.c
star-2.7.10b
In file included from SoloReadBarcode_getCBandUMI.cpp:1:
In file included from ./SoloReadBarcode.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o errmod.o errmod.c
star-2.7.10b
In file included from SoloReadFeature.cpp:1:
In file included from ./SoloReadFeature.h:5:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloReadFeature_inputRecords.cpp:2:
In file included from ./SoloReadFeature.h:5:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SoloReadFeature_record.cpp:1:
In file included from ./SoloReadFeature.h:5:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o faidx.o faidx.c
star-2.7.10b
In file included from SoloRead_record.cpp:1:
In file included from ./SoloRead.h:4:
In file included from ./SoloReadBarcode.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SpliceGraph.cpp:6:
In file included from ./SpliceGraph.h:7:
In file included from ./GTF.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SpliceGraph_findSuperTr.cpp:1:
In file included from ./SpliceGraph.h:7:
In file included from ./GTF.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SpliceGraph_swScoreSpliced.cpp:5:
In file included from ./SpliceGraph.h:7:
In file included from ./GTF.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Stats.cpp:1:
In file included from ./Stats.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SuffixArrayFuns.cpp:1:
In file included from ./SuffixArrayFuns.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from SuperTranscriptome.cpp:1:
In file included from ./SuperTranscriptome.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o hfile.o hfile.c
star-2.7.10b
In file included from ThreadControl.cpp:1:
In file included from ./ThreadControl.h:4:
In file included from ./ReadAlignChunk.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_alignScore.cpp:2:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_convertGenomeCigar.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_generateCigarP.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_transformGenome.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_variationAdjust.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcript_variationOutput.cpp:1:
In file included from ./Transcript.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o hfile_net.o hfile_net.c
star-2.7.10b
In file included from Transcriptome.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o hts.o hts.c
star-2.7.10b
In file included from Transcriptome_alignExonOverlap.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcriptome_classifyAlign.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcriptome_geneCountsAddAlign.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcriptome_geneFullAlignOverlap.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Transcriptome_quantAlign.cpp:1:
In file included from ./Transcriptome.h:6:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from Variation.cpp:1:
In file included from ./Variation.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from bamRemoveDuplicates.cpp:2:
In file included from ./bamRemoveDuplicates.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from bamSortByCoordinate.cpp:1:
In file included from ./bamSortByCoordinate.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from binarySearch2.cpp:1:
In file included from ./binarySearch2.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from blocksOverlap.cpp:1:
In file included from ./blocksOverlap.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from extendAlign.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from genomeParametersWrite.cpp:1:
In file included from ./genomeParametersWrite.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from genomeSAindex.cpp:1:
In file included from ./genomeSAindex.h:3:
In file included from ./PackedArray.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from genomeScanFastaFiles.cpp:1:
In file included from ./genomeScanFastaFiles.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from insertSeqSA.cpp:5:
In file included from ./insertSeqSA.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from mapThreadsSpawn.cpp:1:
In file included from ./mapThreadsSpawn.h:3:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from outputSJ.cpp:1:
In file included from ./ReadAlignChunk.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from readLoad.cpp:1:
In file included from ./readLoad.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from samHeaders.cpp:1:
In file included from ./samHeaders.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from serviceFuns.cpp:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from signalFromBAM.cpp:1:
In file included from ./signalFromBAM.h:6:
In file included from ./Stats.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjAlignSplit.cpp:1:
In file included from ./sjAlignSplit.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjdbBuildIndex.cpp:1:
In file included from ./sjdbBuildIndex.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjdbInsertJunctions.cpp:1:
In file included from ./sjdbInsertJunctions.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjdbLoadFromFiles.cpp:1:
In file included from ./sjdbLoadFromFiles.h:5:
In file included from ./SjdbClass.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjdbLoadFromStream.cpp:1:
In file included from ./sjdbLoadFromStream.h:5:
In file included from ./SjdbClass.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from sjdbPrepare.cpp:1:
In file included from ./sjdbPrepare.h:4:
In file included from ./SjdbClass.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from soloInputFeatureUMI.cpp:1:
In file included from ./soloInputFeatureUMI.h:7:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from stitchAlignToTranscript.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from stitchGapIndel.cpp:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from stitchWindowAligns.cpp:1:
In file included from ./stitchWindowAligns.h:1:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from streamFuns.cpp:1:
In file included from ./streamFuns.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
In file included from twoPassRunPass1.cpp:1:
In file included from ./twoPassRunPass1.h:4:
In file included from ./Parameters.h:4:
./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
24 | #include <omp.h>
| ^~~~~~~
1 error generated.
error: invalid argument '-std=c++11' not allowed with 'C'
Makefile:138: Depend.list: No such file or directory
make: *** [Makefile:137: Depend.list] Error 1
starfetch-0.0.4
Build started
→ unpackPhase
unpacking source archive /nix/store/in8131kmkrbh0rkbq3xj7brz8xyglx11-source
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o hts_os.o hts_os.c
starfetch-0.0.4
source root is source
→ patchPhase
substituteStream() in derivation starfetch-x86_64-unknown-linux-gnufilc0-0.0.4: WARNING: '--replace' is deprecated, use --replace-{fail,warn,quiet}. (file 'src/starfetch.cpp')→ updateAutotoolsGnuConfigScriptsPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ configurePhase
no configure script, doing nothing
→ buildPhase
build flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash
clang++ -Wall -Wextra -O2 -ggdb -std=c++17 -pipe -pedantic -Wundef -Wshadow -W -Wwrite-strings -Wcast-align -Wstrict-overflow=5 -Wconversion -Wpointer-arith -Wformat=2 -Wsign-compare -Wendif-labels -Wredundant-decls -Winit-self src/starfetch.cpp -o starfetch
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o htsfile.o htsfile.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o kfunc.o kfunc.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o knetfile.o knetfile.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o kstring.o kstring.c
starfetch-0.0.4
In file included from src/starfetch.cpp:14:
src/include/json.hpp:21942:35: warning: identifier '_json' preceded by whitespace in a literal operator declaration is deprecated [-Wdeprecated-literal-operator]
21942 | inline nlohmann::json operator "" _json(const char* s, std::size_t n)
| ~~~~~~~~~~~~^~~~~
| operator""_json
src/include/json.hpp:21950:49: warning: identifier '_json_pointer' preceded by whitespace in a literal operator declaration is deprecated [-Wdeprecated-literal-operator]
21950 | inline nlohmann::json::json_pointer operator "" _json_pointer(const char* s, std::size_t n)
| ~~~~~~~~~~~~^~~~~~~~~~~~~
| operator""_json_pointer
stacks-2.68
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o md5.o md5.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o multipart.o multipart.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o os/rand.o os/rand.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o probaln.o probaln.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o realn.o realn.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o regidx.o regidx.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o sam.o sam.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o synced_bcf_reader.o synced_bcf_reader.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o tabix.o tabix.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o tbx.o tbx.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o textutils.o textutils.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o thread_pool.o thread_pool.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o vcf.o vcf.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o vcf_sweep.o vcf_sweep.c
clang -DHAVE_CONFIG_H -I. -I.. -g -O2 -c -o vcfutils.o vcfutils.c
rm -f libhts.a
ar cru libhts.a bcf_sr_sort.o bgzf.o bgzip.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o errmod.o faidx.o hfile.o hfile_net.o hts.o hts_os.o htsfile.o kfunc.o knetfile.o kstring.o md5.o multipart.o os/rand.o probaln.o realn.o regidx.o sam.o synced_bcf_reader.o tabix.o tbx.o textutils.o thread_pool.o vcf.o vcf_sweep.o vcfutils.o
ar: `u' modifier ignored since `D' is the default (see `U')
ranlib libhts.a
make[2]: Leaving directory '/build/stacks-2.68/htslib'
make[2]: Entering directory '/build/stacks-2.68'
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/ustacks.o src/ustacks.cc
starfetch-0.0.4
2 warnings generated.
→ installPhase
→ fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/gyf8jxc7vw0jx7a47gh34a5lz69ilzlw-starfetch-x86_64-unknown-linux-gnufilc0-0.0.4
shrinking /nix/store/gyf8jxc7vw0jx7a47gh34a5lz69ilzlw-starfetch-x86_64-unknown-linux-gnufilc0-0.0.4/bin/starfetch
checking for references to /build/ in /nix/store/gyf8jxc7vw0jx7a47gh34a5lz69ilzlw-starfetch-x86_64-unknown-linux-gnufilc0-0.0.4...
patching script interpreter paths in /nix/store/gyf8jxc7vw0jx7a47gh34a5lz69ilzlw-starfetch-x86_64-unknown-linux-gnufilc0-0.0.4
stripping (with command strip and flags -S -p) in /nix/store/gyf8jxc7vw0jx7a47gh34a5lz69ilzlw-starfetch-x86_64-unknown-linux-gnufilc0-0.0.4/bin
stargate-libcds-1.0.0
Build started
→ unpackPhase
unpacking source archive /nix/store/pzwkichzcnyp5gndqj1a4c5b4gkvwm27-source
source root is source
→ patchPhase
applying patch /nix/store/0j8z5hd3hcaaadqzx5flzhiyalggn1d5-Makefile.patch
patching file Makefile
applying patch /nix/store/86jm5pq6qarvnz3bsbpqp66l1s8lbhis-malloc-to-stdlib.patch
patching file src/hashtable/bucket.c
patching file src/hashtable/entry.c
patching file src/list.c
→ updateAutotoolsGnuConfigScriptsPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ configurePhase
no configure script, doing nothing
→ buildPhase
build flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash
# Compile the shared library
clang \
-Wall -fPIC -O2 -mfpmath=sse -mssse3 -shared \
src/bytestr.c src/dl-list.c src/fast-sll.c src/hashtable/hash.c src/hashtable/bucket.c src/hashtable/entry.c src/hashtable.c src/objectstore.c src/queue.c src/list.c -Iinclude -o libcds.so
→ checkPhase
check flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash VERBOSE=y test
# Compile and run the test suite through Valgrind to check for
# memory errors, then generate an HTML code coverage report
# using gcovr
clang -Wall -fPIC -O0 -g -ggdb3 -mfpmath=sse -mssse3 \
src/bytestr.c src/dl-list.c src/fast-sll.c src/hashtable/hash.c src/hashtable/bucket.c src/hashtable/entry.c src/hashtable.c src/objectstore.c src/queue.c src/list.c tests/hashtable/test_hash.c tests/main.c tests/test_bytestr.c tests/test_dl-list.c tests/test_fast-sll.c tests/test_hashtable.c tests/test_list.c tests/test_objectstore.c tests/test_queue.c \
-Iinclude \
-o libcds.tests
→ installPhase
→ fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/1yfzkzd87wnmi168dalwsavprg4g0r2k-stargate-libcds-x86_64-unknown-linux-gnufilc0-1.0.0
shrinking /nix/store/1yfzkzd87wnmi168dalwsavprg4g0r2k-stargate-libcds-x86_64-unknown-linux-gnufilc0-1.0.0/lib/libcds.so
checking for references to /build/ in /nix/store/1yfzkzd87wnmi168dalwsavprg4g0r2k-stargate-libcds-x86_64-unknown-linux-gnufilc0-1.0.0...
patching script interpreter paths in /nix/store/1yfzkzd87wnmi168dalwsavprg4g0r2k-stargate-libcds-x86_64-unknown-linux-gnufilc0-1.0.0
stripping (with command strip and flags -S -p) in /nix/store/1yfzkzd87wnmi168dalwsavprg4g0r2k-stargate-libcds-x86_64-unknown-linux-gnufilc0-1.0.0/lib
std-man-pages-4.4.0
Build started
→ unpackPhase
unpacking source archive /nix/store/2jfrzr1582spaf3ac44aa054ksrxgcc7-libstdc++-man.4.4.0.tar.bz2
source root is libstdc++-man-4.4.0
setting SOURCE_DATE_EPOCH to timestamp 1240344989 of file "libstdc++-man-4.4.0/man3/std::wstringstream.3"
→ patchPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ configurePhase
no configure script, doing nothing
→ buildPhase
no Makefile or custom buildPhase, doing nothing
→ installPhase
→ fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/3rmi6qij6wiqk7di895fahx81vdpzl0h-std-man-pages-x86_64-unknown-linux-gnufilc0-4.4.0
checking for references to /build/ in /nix/store/3rmi6qij6wiqk7di895fahx81vdpzl0h-std-man-pages-x86_64-unknown-linux-gnufilc0-4.4.0...
gzipping man pages under /nix/store/3rmi6qij6wiqk7di895fahx81vdpzl0h-std-man-pages-x86_64-unknown-linux-gnufilc0-4.4.0/share/man/
patching script interpreter paths in /nix/store/3rmi6qij6wiqk7di895fahx81vdpzl0h-std-man-pages-x86_64-unknown-linux-gnufilc0-4.4.0
stderred-unstable-2021-04-28
Build started
→ unpackPhase
unpacking source archive /nix/store/5j0q0yafifj7jx5p524sy96hlsbmrsjv-source
source root is source/src
→ patchPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ configurePhase
fixing cmake files...
cmake flags: -DCMAKE_FIND_USE_SYSTEM_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_BUILD_TYPE=Release -DBUILD_TESTING=OFF -DCMAKE_INSTALL_LOCALEDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/share/locale -DCMAKE_INSTALL_LIBEXECDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/libexec -DCMAKE_INSTALL_LIBDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/lib -DCMAKE_INSTALL_DOCDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/share/doc/stderred -DCMAKE_INSTALL_INFODIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/share/info -DCMAKE_INSTALL_MANDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/share/man -DCMAKE_INSTALL_INCLUDEDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/include -DCMAKE_INSTALL_SBINDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/sbin -DCMAKE_INSTALL_BINDIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/bin -DCMAKE_INSTALL_NAME_DIR=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/lib -DCMAKE_POLICY_DEFAULT_CMP0025=NEW -DCMAKE_FIND_FRAMEWORK=LAST -DCMAKE_STRIP=/nix/store/42rvnpz9javp8wx0lwk0374bxx527ffr-filc-cc-wrapper-/bin/strip -DCMAKE_RANLIB=/nix/store/42rvnpz9javp8wx0lwk0374bxx527ffr-filc-cc-wrapper-/bin/ranlib -DCMAKE_AR=/nix/store/42rvnpz9javp8wx0lwk0374bxx527ffr-filc-cc-wrapper-/bin/ar -DCMAKE_C_COMPILER=clang -DCMAKE_CXX_COMPILER=clang++ -DCMAKE_INSTALL_PREFIX=/nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28 -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=x86_64 -DCMAKE_HOST_SYSTEM_NAME=Linux -DCMAKE_HOST_SYSTEM_PROCESSOR=x86_64 -DCMAKE_CROSSCOMPILING_EMULATOR=env
CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 3.10 will be removed from a future version of
CMake.
Update the VERSION argument <min> value. Or, use the <min>...<max> syntax
to tell CMake that the project requires at least <min> but has been updated
to work with policies introduced by <max> or earlier.
-- The C compiler identification is Clang 20.1.8
-- The CXX compiler identification is Clang 20.1.8
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /nix/store/42rvnpz9javp8wx0lwk0374bxx527ffr-filc-cc-wrapper-/bin/clang - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /nix/store/42rvnpz9javp8wx0lwk0374bxx527ffr-filc-cc-wrapper-/bin/clang++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Performing Test HAVE_GLIBC
-- Performing Test HAVE_GLIBC - Success
-- Looking for include file error.h
-- Looking for include file error.h - found
-- Looking for include file err.h
-- Looking for include file err.h - found
-- Looking for fwrite_unlocked
-- Looking for fwrite_unlocked - found
-- Looking for fputs_unlocked
-- Looking for fputs_unlocked - found
-- Looking for fputc_unlocked
-- Looking for fputc_unlocked - found
-- Looking for fprintf_unlocked
-- Looking for fprintf_unlocked - not found
-- Looking for error
-- Looking for error - found
-- Looking for error_at_line
-- Looking for error_at_line - found
-- Looking for err
-- Looking for err - found
-- Looking for verr
-- Looking for verr - found
-- Looking for errc
-- Looking for errc - not found
-- Looking for verrc
-- Looking for verrc - not found
-- Looking for errx
-- Looking for errx - found
-- Looking for verrx
-- Looking for verrx - found
-- Looking for warn
-- Looking for warn - found
-- Looking for vwarn
-- Looking for vwarn - found
-- Looking for warnc
-- Looking for warnc - not found
-- Looking for vwarnc
-- Looking for vwarnc - not found
-- Looking for warnx
-- Looking for warnx - found
-- Looking for vwarnx
-- Looking for vwarnx - found
-- Looking for err_set_file
-- Looking for err_set_file - not found
-- Looking for __fprintf_chk
-- Looking for __fprintf_chk - found
-- Looking for __write_nocancel
-- Looking for __write_nocancel - found
-- Configuring done (2.5s)
-- Generating done (0.0s)
CMake Warning:
Manually-specified variables were not used by the project:
CMAKE_EXPORT_NO_PACKAGE_REGISTRY
CMAKE_FIND_USE_PACKAGE_REGISTRY
CMAKE_FIND_USE_SYSTEM_PACKAGE_REGISTRY
CMAKE_INSTALL_BINDIR
CMAKE_INSTALL_DOCDIR
CMAKE_INSTALL_INCLUDEDIR
CMAKE_INSTALL_INFODIR
CMAKE_INSTALL_LIBDIR
CMAKE_INSTALL_LIBEXECDIR
CMAKE_INSTALL_LOCALEDIR
CMAKE_INSTALL_MANDIR
CMAKE_INSTALL_SBINDIR
CMAKE_POLICY_DEFAULT_CMP0025
-- Build files have been written to: /build/source/src/build
cmake: enabled parallel building
cmake: enabled parallel installing
→ buildPhase
build flags: -j7 SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash
[ 11%] Building C object CMakeFiles/stderred.dir/stderred.c.o
[ 22%] Building C object CMakeFiles/polyfill.dir/polyfill.c.o
[ 33%] Building C object CMakeFiles/test_stderred.dir/mocks.c.o
[ 44%] Building C object CMakeFiles/test_stderred.dir/stderred.c.o
[ 55%] Linking C shared library libpolyfill.so
[ 55%] Built target polyfill
[ 66%] Building C object CMakeFiles/test_runner.dir/test.c.o
[ 77%] Linking C shared library libstderred.so
[ 88%] Linking C shared library libtest_stderred.so
[ 88%] Built target stderred
[ 88%] Built target test_stderred
/build/source/src/test.c:310:13: warning: passing arguments to a function without a prototype is deprecated in all versions of C and is not supported in C23 [-Wdeprecated-non-prototype]
310 | init_mocks(&stderred);
| ^
1 warning generated.
[100%] Linking C executable test_runner
[100%] Built target test_runner
→ installPhase
install flags: -j7 SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash install
[ 55%] Built target stderred
[ 55%] Built target test_stderred
[ 77%] Built target polyfill
[100%] Built target test_runner
Install the project...
-- Install configuration: "Release"
-- Installing: /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/lib/libstderred.so
→ fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28
shrinking /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/lib/libstderred.so
checking for references to /build/ in /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28...
patching script interpreter paths in /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28
stripping (with command strip and flags -S -p) in /nix/store/ywyx09r4gwhlmwpkw31g46i1iqx7z76f-stderred-x86_64-unknown-linux-gnufilc0-unstable-2021-04-28/lib
stdman-2024.07.05
Build started
→ unpackPhase
unpacking source archive /nix/store/qnbr98plbi8h8fklif3sivig4kk3gwg8-source
source root is source
→ patchPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ updateAutotoolsGnuConfigScriptsPhase
→ configurePhase
patching script interpreter paths in ./do_install
./do_install: interpreter directive changed from "#!/usr/bin/env bash" to "/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash"
patching script interpreter paths in ./configure
./configure: interpreter directive changed from "#!/usr/bin/env bash" to "/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash"
configure flags: --prefix=/nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05 --build=x86_64-unknown-linux-gnu --host=x86_64-unknown-linux-gnufilc0
Configuring stdman
Platform: Linux
Reference location: /build/source/reference/en/cpp
Install prefix: /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05
Install data prefix: /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05/share
Install man prefix: /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05/share/man
Temporary man location: /build/source/man
Generation will be on 8 threads
Populating Makefile
Done configuring stdman
To install, use `make install` with the appropriate permissions for your prefix
→ buildPhase
build flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash
Cleaned
Preparing
Building stdman
Compiling src/main.cpp
stacks-2.68
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:53:
In file included from src/kmers.h:35:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:53:
In file included from src/kmers.h:35:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:53:
In file included from src/kmers.h:36:
In file included from src/locus.h:34:
src/Alignment.h:59:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:59:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:223:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:36: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:53:
In file included from src/kmers.h:36:
src/locus.h:180:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
180 | SRead(Read&& r, size_t spl) : Read(move(r)), sample(spl) {}| ^
| std::
src/locus.h:186:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
186 | SAlnRead(AlnRead&& r, size_t spl) : AlnRead(move(r)), sample(spl) {}| ^
| std::
src/locus.h:187:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:187:66: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:216:43: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
216 | void add(SRead&& r) {reads_.push_back(move(r));}| ^
| std::
src/locus.h:217:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
217 | void add_pe(SRead&& r) {pe_reads_.push_back(move(r));}| ^
| std::
src/locus.h:245:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
245 | void ref(DNASeq4&& s) {ref_ = move(s);}| ^
| std::
src/locus.h:308:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
308 | reads_.push_back(move(r));
| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:53:
In file included from src/kmers.h:37:
src/mstack.h:92:18: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
92 | , utags (move(o.utags))
| ^
| std::
src/mstack.h:93:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
93 | , remtags (move(o.remtags))
| ^
| std::
src/mstack.h:95:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
95 | , dist (move(o.dist))
| ^
| std::
src/mstack.h:96:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
96 | , alns (move(o.alns))
| ^
| std::
src/mstack.h:99:16: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
99 | , loc (move(o.loc))
| ^
| std::
src/mstack.h:100:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
100 | , snps (move(o.snps))
| ^
| std::
src/mstack.h:101:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
101 | , alleles (move(o.alleles))
| ^
| std::
src/mstack.h:102:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
102 | , gaps (move(o.gaps))
| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:59:
src/models.h:115:24: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
115 | : alleles_(move(alleles))
| ^
| std::
src/models.h:117:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
117 | , sample_calls_(move(sample_calls))
| ^
| std::
src/models.h:124:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
124 | : SiteCall(move(alleles), -1, move(sample_calls)) {}| ^
| std::
src/models.h:124:39: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
124 | : SiteCall(move(alleles), -1, move(sample_calls)) {}| ^
| std::
In file included from src/ustacks.cc:25:
In file included from src/ustacks.h:65:
src/GappedAln.h:42:28: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
42 | this->cigar = move(cigar);
| ^
| std::
src/GappedAln.h:49:28: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
49 | this->cigar = move(cigar);
| ^
| std::
src/GappedAln.h:778:33: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
778 | alns.push_back(AlignRes(move(cigar), gaps, contiguity, (ident / (double) len)));
| ^
| std::
src/GappedAln.h:924:33: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
924 | alns.push_back(AlignRes(move(cigar), gaps, contiguity, (ident / (double) len), (uint) j));
| ^
| std::
33 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/aln_utils.o src/aln_utils.cc
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/BamI.o src/BamI.cc
In file included from src/BamI.cc:6:
In file included from src/BamI.h:36:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/BamI.cc:6:
In file included from src/BamI.h:36:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/BamI.cc:157:9: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
157 | hdr(move(header)),
| ^
| std::
5 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/catalog_utils.o src/catalog_utils.cc
In file included from src/catalog_utils.cc:32:
In file included from src/catalog_utils.h:30:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/catalog_utils.cc:32:
In file included from src/catalog_utils.h:30:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
In file included from src/catalog_utils.cc:32:
In file included from src/catalog_utils.h:31:
In file included from src/locus.h:34:
src/Alignment.h:59:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:59:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:223:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:36: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
In file included from src/catalog_utils.cc:32:
In file included from src/catalog_utils.h:31:
src/locus.h:180:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
180 | SRead(Read&& r, size_t spl) : Read(move(r)), sample(spl) {}| ^
| std::
src/locus.h:186:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
186 | SAlnRead(AlnRead&& r, size_t spl) : AlnRead(move(r)), sample(spl) {}| ^
| std::
src/locus.h:187:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:187:66: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:216:43: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
216 | void add(SRead&& r) {reads_.push_back(move(r));}| ^
| std::
src/locus.h:217:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
217 | void add_pe(SRead&& r) {pe_reads_.push_back(move(r));}| ^
| std::
src/locus.h:245:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
245 | void ref(DNASeq4&& s) {ref_ = move(s);}| ^
| std::
src/locus.h:308:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
308 | reads_.push_back(move(r));
| ^
| std::
In file included from src/catalog_utils.cc:32:
In file included from src/catalog_utils.h:32:
src/PopMap.h:452:33: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
452 | ++cloc->alleles[move(hap)];
| ^
| std::
src/PopMap.h:454:33: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
454 | ++cloc->alleles[move(hap)];
| ^
| std::
19 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/cmb.o src/cmb.cc
stdman-2024.07.05
Linking
Done building stdman
Success
→ installPhase
install flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash install
Installing from /build/source/man to /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05/share/man/man3
stacks-2.68
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/constants.o src/constants.cc
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/DNANSeq.o src/DNANSeq.cc
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/DNASeq4.o src/DNASeq4.cc
In file included from src/DNASeq4.cc:1:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
src/DNASeq4.cc:96:13: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
96 | *this = move(seq);
| ^
| std::
3 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/DNASeq.o src/DNASeq.cc
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/gzFasta.o src/gzFasta.cc
stdman-2024.07.05
Done; it's advised to run 'sudo mandb' (GNU) or 'sudo makewhatis' (BSD) now.
→ fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05
checking for references to /build/ in /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05...
gzipping man pages under /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05/share/man/
patching script interpreter paths in /nix/store/fxp3ldlbva5bz1ikah2p21bc186a94iz-stdman-x86_64-unknown-linux-gnufilc0-2024.07.05
stacks-2.68
In file included from src/gzFasta.cc:21:
In file included from src/gzFasta.h:24:
In file included from src/input.h:34:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/gzFasta.cc:21:
In file included from src/gzFasta.h:24:
In file included from src/input.h:34:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
4 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/input.o src/input.cc
In file included from src/input.cc:25:
In file included from src/input.h:34:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/input.cc:25:
In file included from src/input.h:34:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
4 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/kmers.o src/kmers.cc
In file included from src/kmers.cc:24:
In file included from src/kmers.h:35:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/kmers.cc:24:
In file included from src/kmers.h:35:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
In file included from src/kmers.cc:24:
In file included from src/kmers.h:36:
In file included from src/locus.h:34:
src/Alignment.h:59:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:59:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:223:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:36: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
In file included from src/kmers.cc:24:
In file included from src/kmers.h:36:
src/locus.h:180:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
180 | SRead(Read&& r, size_t spl) : Read(move(r)), sample(spl) {}| ^
| std::
src/locus.h:186:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
186 | SAlnRead(AlnRead&& r, size_t spl) : AlnRead(move(r)), sample(spl) {}| ^
| std::
src/locus.h:187:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:187:66: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:216:43: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
216 | void add(SRead&& r) {reads_.push_back(move(r));}| ^
| std::
src/locus.h:217:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
217 | void add_pe(SRead&& r) {pe_reads_.push_back(move(r));}| ^
| std::
src/locus.h:245:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
245 | void ref(DNASeq4&& s) {ref_ = move(s);}| ^
| std::
src/locus.h:308:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
308 | reads_.push_back(move(r));
| ^
| std::
In file included from src/kmers.cc:24:
In file included from src/kmers.h:37:
src/mstack.h:92:18: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
92 | , utags (move(o.utags))
| ^
| std::
src/mstack.h:93:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
93 | , remtags (move(o.remtags))
| ^
| std::
src/mstack.h:95:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
95 | , dist (move(o.dist))
| ^
| std::
src/mstack.h:96:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
96 | , alns (move(o.alns))
| ^
| std::
src/mstack.h:99:16: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
99 | , loc (move(o.loc))
| ^
| std::
src/mstack.h:100:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
100 | , snps (move(o.snps))
| ^
| std::
src/mstack.h:101:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
101 | , alleles (move(o.alleles))
| ^
| std::
src/mstack.h:102:17: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
102 | , gaps (move(o.gaps))
| ^
| std::
25 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/locus.o src/locus.cc
In file included from src/locus.cc:24:
In file included from src/locus.h:32:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/locus.cc:24:
In file included from src/locus.h:32:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
In file included from src/locus.cc:24:
In file included from src/locus.h:34:
src/Alignment.h:59:41: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:59:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
59 | AlnRead(Read&& r, Cigar&& c) : Read(move(r)), cigar(move(c)) {}| ^
| std::
src/Alignment.h:223:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:36: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
src/Alignment.h:223:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
223 | return AlnRead(Read(move(seq), move(name)), move(cig));
| ^
| std::
In file included from src/locus.cc:24:
src/locus.h:180:40: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
180 | SRead(Read&& r, size_t spl) : Read(move(r)), sample(spl) {}| ^
| std::
src/locus.h:186:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
186 | SAlnRead(AlnRead&& r, size_t spl) : AlnRead(move(r)), sample(spl) {}| ^
| std::
src/locus.h:187:57: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:187:66: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
187 | SAlnRead(Read&& r, Cigar&& c, size_t spl) : AlnRead(move(r), move(c)), sample(spl) {}| ^
| std::
src/locus.h:216:43: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
216 | void add(SRead&& r) {reads_.push_back(move(r));}| ^
| std::
src/locus.h:217:49: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
217 | void add_pe(SRead&& r) {pe_reads_.push_back(move(r));}| ^
| std::
src/locus.h:245:35: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
245 | void ref(DNASeq4&& s) {ref_ = move(s);}| ^
| std::
src/locus.h:308:22: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
308 | reads_.push_back(move(r));
| ^
| std::
src/locus.cc:519:51: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
519 | *r1 = SAlnRead(AlnRead::merger_of(move(*r1), move(*r2)), r1->sample);
| ^
| std::
src/locus.cc:519:62: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
519 | *r1 = SAlnRead(AlnRead::merger_of(move(*r1), move(*r2)), r1->sample);
| ^
| std::
src/locus.cc:668:24: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
668 | CLocAlnSet merged (move(left));
| ^
| std::
src/locus.cc:691:24: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
691 | merged.add(move(r));
| ^
| std::
src/locus.cc:727:20: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
727 | merged.add(move(r));
| ^
| std::
22 warnings generated.
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/log_utils.o src/log_utils.cc
clang++ -DHAVE_CONFIG_H -I. -I./htslib -g -O2 -c -o src/MetaPopInfo.o src/MetaPopInfo.cc
In file included from src/MetaPopInfo.cc:10:
In file included from src/input.h:34:
In file included from src/stacks.h:40:
src/DNASeq4.h:80:58: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
80 | DNASeq4(DNASeq4&& other) noexcept : l_(other.l_), v_(move(other.v_)) {other.clear();}| ^
| std::
src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}| ^
| std::
In file included from src/MetaPopInfo.cc:10:
In file included from src/input.h:34:
src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
270 | : seq(move(s)), name(move(n))
| ^
| std::
src/MetaPopInfo.cc:427:30: error: non-constant-expression cannot be narrowed from type 'size_t' (aka 'unsigned long') to 'const int' in initializer list [-Wc++11-narrowing-const-reference]
427 | pop_indexes.insert( {i, {pops_[i].first_sample, pops_[i].last_sample}} );| ^
4 warnings and 1 error generated.
make[2]: *** [Makefile:1105: src/MetaPopInfo.o] Error 1
make[2]: Leaving directory '/build/stacks-2.68'
make[1]: *** [Makefile:1122: all-recursive] Error 1
make[1]: Leaving directory '/build/stacks-2.68'
make: *** [Makefile:762: all] Error 2
sshping-0.1.4
error: Cannot build '/nix/store/5x9ms52di5lp5rwrf2aw3gcc6vws4bnx-sshping-x86_64-unknown-linux-gnufilc0-0.1.4.drv'.
Reason: builder failed with exit code 1.
Output paths:
/nix/store/lvin4j8dgwwk2705iq1c6ax6df0phi68-sshping-x86_64-unknown-linux-gnufilc0-0.1.4
Last 25 log lines:
> /nix/store/ndvlcikqi2jiwfwhm1gpx17pzx06w91g-libssh-x86_64-unknown-linux-gnufilc0-0.11.2-dev/include/libssh/libssh.h:81:40: note: expanded from macro 'SSH_DEPRECATED'
> 81 | #define SSH_DEPRECATED __attribute__ ((deprecated))
> | ^
> src/sshping.cxx:632:9: warning: 'ssh_scp_close' is deprecated [-Wdeprecated-declarations]
> 632 | ssh_scp_close(scp);
> | ^
> /nix/store/ndvlcikqi2jiwfwhm1gpx17pzx06w91g-libssh-x86_64-unknown-linux-gnufilc0-0.11.2-dev/include/libssh/libssh.h:588:1: note: 'ssh_scp_close' has been explicitly marked deprecated here
> 588 | SSH_DEPRECATED LIBSSH_API int ssh_scp_close(ssh_scp scp);
> | ^
> /nix/store/ndvlcikqi2jiwfwhm1gpx17pzx06w91g-libssh-x86_64-unknown-linux-gnufilc0-0.11.2-dev/include/libssh/libssh.h:81:40: note: expanded from macro 'SSH_DEPRECATED'
> 81 | #define SSH_DEPRECATED __attribute__ ((deprecated))
> | ^
> src/sshping.cxx:633:9: warning: 'ssh_scp_free' is deprecated [-Wdeprecated-declarations]
> 633 | ssh_scp_free(scp);
> | ^
> /nix/store/ndvlcikqi2jiwfwhm1gpx17pzx06w91g-libssh-x86_64-unknown-linux-gnufilc0-0.11.2-dev/include/libssh/libssh.h:590:1: note: 'ssh_scp_free' has been explicitly marked deprecated here
> 590 | SSH_DEPRECATED LIBSSH_API void ssh_scp_free(ssh_scp scp);
> | ^
> /nix/store/ndvlcikqi2jiwfwhm1gpx17pzx06w91g-libssh-x86_64-unknown-linux-gnufilc0-0.11.2-dev/include/libssh/libssh.h:81:40: note: expanded from macro 'SSH_DEPRECATED'
> 81 | #define SSH_DEPRECATED __attribute__ ((deprecated))
> | ^
> 23 warnings generated.
> /build/sshping-dbd2cb.o:sshping.cxx:function pizlonatedFI403_sqrt:(.text+0x2dfb4): error: undefined reference to 'pizlonated_sqrt'
> /build/sshping-dbd2cb.o:sshping.cxx:function pizlonatedFI4792_pow:(.text+0x35cba): error: undefined reference to 'pizlonated_pow'
> clang-20: error: linker command failed with exit code 1 (use -v to see invocation)
For full logs, run:
nix log /nix/store/5x9ms52di5lp5rwrf2aw3gcc6vws4bnx-sshping-x86_64-unknown-linux-gnufilc0-0.1.4.drvssw-0.10
error: Cannot build '/nix/store/dz7nl2dxycvhzq1iaar1n2gprpykbsb1-ssw-x86_64-unknown-linux-gnufilc0-0.10.drv'.
Reason: builder failed with exit code 2.
Output paths:
/nix/store/7kp6bafpg7q2ggvjap6ypa444qcj6d94-ssw-x86_64-unknown-linux-gnufilc0-0.10
Last 25 log lines:
> checking if clang supports -c -o file.o... yes
> checking if clang supports -c -o file.o... (cached) yes
> checking whether the clang linker (ld -m elf_x86_64) supports shared libraries... yes
> checking whether -lc should be explicitly linked in... no
> checking dynamic linker characteristics... GNU/Linux ld.so
> checking how to hardcode library paths into programs... immediate
> checking whether stripping libraries is possible... yes
> checking if libtool supports shared libraries... yes
> checking whether to build shared libraries... yes
> checking whether to build static libraries... no
> checking pkg-config is at least version 0.9.0... yes
> checking for gtk+-3.0 >= 3.18.0... yes
> checking for glib-2.0 >= 2.44... yes
> checking that generated files are newer than configure... done
> configure: creating ./config.status
> config.status: creating Makefile
> config.status: creating spread-sheet-widget.pc
> config.status: creating config.h
> config.status: executing depfiles commands
> config.status: executing libtool commands
> Running phase: buildPhase
> build flags: SHELL=/nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash
> glib-genmarshal --body --prefix=ssw_cclosure_marshal src/marshall-list > src/ssw-marshaller.c,tmp
> /nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash: line 1: glib-genmarshal: command not found
> make: *** [Makefile:1594: src/ssw-marshaller.c] Error 127
For full logs, run:
nix log /nix/store/dz7nl2dxycvhzq1iaar1n2gprpykbsb1-ssw-x86_64-unknown-linux-gnufilc0-0.10.drvst-0.9.2
error: Cannot build '/nix/store/rq6xnaj97560fzq2n6dfvclbkdbsv0p5-st-x86_64-unknown-linux-gnufilc0-0.9.2.drv'.
Reason: builder failed with exit code 2.
Output paths:
/nix/store/5lykqc9bbzp79mqzwr6f5hb7jhx2qkxz-st-x86_64-unknown-linux-gnufilc0-0.9.2
/nix/store/jj43fng91m9k3asgzhy91n09hdx2hqva-st-x86_64-unknown-linux-gnufilc0-0.9.2-terminfo
Last 25 log lines:
> clang -o st st.o x.o -L/usr/X11R6/lib -lm -lrt -lX11 -lutil -lXft `pkg-config --libs fontconfig` `pkg-config --libs freetype2`
> /nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash: line 1: pkg-config: command not found
> /nix/store/cfqbabpc7xwg8akbcchqbq3cai6qq2vs-bash-5.2p37/bin/bash: line 1: pkg-config: command not found
> x.o:x.c:function pizlonatedFI17023078_FcFontSort:(.text+0x24e3d): error: undefined reference to 'pizlonated_FcFontSort'
> x.o:x.c:function pizlonatedFI1073_FcPatternDuplicate:(.text+0x24f81): error: undefined reference to 'pizlonated_FcPatternDuplicate'
> x.o:x.c:function pizlonatedFI9_FcCharSetCreate:(.text+0x25037): error: undefined reference to 'pizlonated_FcCharSetCreate'
> x.o:x.c:function pizlonatedFI2529_FcCharSetAddChar:(.text+0x250d7): error: undefined reference to 'pizlonated_FcCharSetAddChar'
> x.o:x.c:function pizlonatedFI141514_FcPatternAddCharSet:(.text+0x251cb): error: undefined reference to 'pizlonated_FcPatternAddCharSet'
> x.o:x.c:function pizlonatedFI28863_FcPatternAddBool:(.text+0x252d2): error: undefined reference to 'pizlonated_FcPatternAddBool'
> x.o:x.c:function pizlonatedFI28863_FcConfigSubstitute:(.text+0x253e2): error: undefined reference to 'pizlonated_FcConfigSubstitute'
> x.o:x.c:function pizlonatedFI1065_FcDefaultSubstitute:(.text+0x254e1): error: undefined reference to 'pizlonated_FcDefaultSubstitute'
> x.o:x.c:function pizlonatedFI17023078_FcFontSetMatch:(.text+0x2558d): error: undefined reference to 'pizlonated_FcFontSetMatch'
> x.o:x.c:function pizlonatedFI1065_FcPatternDestroy:(.text+0x25a11): error: undefined reference to 'pizlonated_FcPatternDestroy'
> x.o:x.c:function pizlonatedFI1065_FcCharSetDestroy:(.text+0x25ab1): error: undefined reference to 'pizlonated_FcCharSetDestroy'
> x.o:x.c:function pizlonatedFI2_FcInit:(.text+0x26f67): error: undefined reference to 'pizlonated_FcInit'
> x.o:x.c:function pizlonatedFI1073_FcNameParse:(.text+0x292a1): error: undefined reference to 'pizlonated_FcNameParse'
> x.o:x.c:function pizlonatedFI12770_FcPatternDel:(.text+0x2936b): error: undefined reference to 'pizlonated_FcPatternDel'
> x.o:x.c:function pizlonatedFI61049_FcPatternAddDouble:(.text+0x29455): error: undefined reference to 'pizlonated_FcPatternAddDouble'
> x.o:x.c:function pizlonatedFI1445047_FcPatternGetDouble:(.text+0x2956b): error: undefined reference to 'pizlonated_FcPatternGetDouble'
> x.o:x.c:function pizlonatedFI28863_FcPatternAddInteger:(.text+0x29692): error: undefined reference to 'pizlonated_FcPatternAddInteger'
> x.o:x.c:function pizlonatedFI141521_FcFontMatch:(.text+0x2a32b): error: undefined reference to 'pizlonated_FcFontMatch'
> x.o:x.c:function pizlonatedFI1445047_FcPatternGetInteger:(.text+0x2a43b): error: undefined reference to 'pizlonated_FcPatternGetInteger'
> x.o:x.c:function pizlonatedFI1065_FcFontSetDestroy:(.text+0x2bba1): error: undefined reference to 'pizlonated_FcFontSetDestroy'
> clang-20: error: linker command failed with exit code 1 (use -v to see invocation)
> make: *** [Makefile:24: st] Error 1
For full logs, run:
nix log /nix/store/rq6xnaj97560fzq2n6dfvclbkdbsv0p5-st-x86_64-unknown-linux-gnufilc0-0.9.2.drvsta-unstable-2021-11-30
error: Cannot build '/nix/store/sqvbfazwmvypl90lrbn8qyqpwv06r3ly-sta-x86_64-unknown-linux-gnufilc0-unstable-2021-11-30.drv'.
Reason: 1 dependency failed.
Output paths:
/nix/store/kmk4azw0kk20jp03qfkxsd1d5mc41hyp-sta-x86_64-unknown-linux-gnufilc0-unstable-2021-11-30stacks-2.68
error: Cannot build '/nix/store/igyqa2d6s7ksa8fw5hb1j4mam596jin9-stacks-x86_64-unknown-linux-gnufilc0-2.68.drv'.
Reason: builder failed with exit code 2.
Output paths:
/nix/store/2cgmj4pplkdwmam517vwndg72y9kbhsi-stacks-x86_64-unknown-linux-gnufilc0-2.68
Last 25 log lines:
> | ^
> | std::
> src/DNASeq4.h:86:63: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
> 86 | DNASeq4& operator= (DNASeq4&& other) {l_ = other.l_; v_ = move(other.v_); other.clear(); return *this;}
> | ^
> | std::
> In file included from src/MetaPopInfo.cc:10:
> In file included from src/input.h:34:
> src/stacks.h:270:15: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
> 270 | : seq(move(s)), name(move(n))
> | ^
> | std::
> src/stacks.h:270:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
> 270 | : seq(move(s)), name(move(n))
> | ^
> | std::
> src/MetaPopInfo.cc:427:30: error: non-constant-expression cannot be narrowed from type 'size_t' (aka 'unsigned long') to 'const int' in initializer list [-Wc++11-narrowing-const-reference]
> 427 | pop_indexes.insert( {i, {pops_[i].first_sample, pops_[i].last_sample}} );
> | ^
> 4 warnings and 1 error generated.
> make[2]: *** [Makefile:1105: src/MetaPopInfo.o] Error 1
> make[2]: Leaving directory '/build/stacks-2.68'
> make[1]: *** [Makefile:1122: all-recursive] Error 1
> make[1]: Leaving directory '/build/stacks-2.68'
> make: *** [Makefile:762: all] Error 2
For full logs, run:
nix log /nix/store/igyqa2d6s7ksa8fw5hb1j4mam596jin9-stacks-x86_64-unknown-linux-gnufilc0-2.68.drvstalonetray-0.8.5
error: Cannot build '/nix/store/n5vf8hn4sfqck3hqiy316izgmi6aygcp-stalonetray-x86_64-unknown-linux-gnufilc0-0.8.5.drv'.
Reason: builder failed with exit code 1.
Output paths:
/nix/store/crhnvlbpajg0imc0wmm39cm3jf81rzsn-stalonetray-x86_64-unknown-linux-gnufilc0-0.8.5
Last 25 log lines:
> checking for strings.h... yes
> checking for sys/stat.h... yes
> checking for sys/types.h... yes
> checking for unistd.h... yes
> checking for wchar.h... yes
> checking for minix/config.h... no
> checking whether it is safe to define __EXTENSIONS__... yes
> checking whether _XOPEN_SOURCE should be defined... no
> checking for ctype.h... yes
> checking for errno.h... yes
> checking for signal.h... yes
> checking for stdio.h... (cached) yes
> checking for stdlib.h... (cached) yes
> checking for string.h... (cached) yes
> checking for time.h... yes
> checking for unistd.h... (cached) yes
> checking for libgen.h... yes
> checking how to run the C preprocessor... clang -E
> checking for X... no
> X11 libraries/headers could not be found.
> If they are definetly installed, use
> --x-includes and --x-libraries to set the paths.
>
> Aborting
>
For full logs, run:
nix log /nix/store/n5vf8hn4sfqck3hqiy316izgmi6aygcp-stalonetray-x86_64-unknown-linux-gnufilc0-0.8.5.drvstar-2.7.10b
error: Cannot build '/nix/store/0ahsckwc3zh124j2qpw1y2avrc5pwcn5-star-x86_64-unknown-linux-gnufilc0-2.7.10b.drv'.
Reason: builder failed with exit code 2.
Output paths:
/nix/store/0wn43s0ypiwgi4kwpfq57rhx9lfhwdi7-star-x86_64-unknown-linux-gnufilc0-2.7.10b
Last 25 log lines:
> | ^~~~~~~
> 1 error generated.
> In file included from stitchWindowAligns.cpp:1:
> In file included from ./stitchWindowAligns.h:1:
> ./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
> 24 | #include <omp.h>
> | ^~~~~~~
> 1 error generated.
> In file included from streamFuns.cpp:1:
> In file included from ./streamFuns.h:4:
> In file included from ./Parameters.h:4:
> ./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
> 24 | #include <omp.h>
> | ^~~~~~~
> 1 error generated.
> In file included from twoPassRunPass1.cpp:1:
> In file included from ./twoPassRunPass1.h:4:
> In file included from ./Parameters.h:4:
> ./IncludeDefine.h:24:10: fatal error: 'omp.h' file not found
> 24 | #include <omp.h>
> | ^~~~~~~
> 1 error generated.
> error: invalid argument '-std=c++11' not allowed with 'C'
> Makefile:138: Depend.list: No such file or directory
> make: *** [Makefile:137: Depend.list] Error 1
For full logs, run:
nix log /nix/store/0ahsckwc3zh124j2qpw1y2avrc5pwcn5-star-x86_64-unknown-linux-gnufilc0-2.7.10b.drverror: build of '/nix/store/0ahsckwc3zh124j2qpw1y2avrc5pwcn5-star-x86_64-unknown-linux-gnufilc0-2.7.10b.drv^*', '/nix/store/5x9ms52di5lp5rwrf2aw3gcc6vws4bnx-sshping-x86_64-unknown-linux-gnufilc0-0.1.4.drv^*', '/nix/store/dz7nl2dxycvhzq1iaar1n2gprpykbsb1-ssw-x86_64-unknown-linux-gnufilc0-0.10.drv^*', '/nix/store/igyqa2d6s7ksa8fw5hb1j4mam596jin9-stacks-x86_64-unknown-linux-gnufilc0-2.68.drv^*', '/nix/store/n5vf8hn4sfqck3hqiy316izgmi6aygcp-stalonetray-x86_64-unknown-linux-gnufilc0-0.8.5.drv^*', '/nix/store/rq6xnaj97560fzq2n6dfvclbkdbsv0p5-st-x86_64-unknown-linux-gnufilc0-0.9.2.drv^*', '/nix/store/sqvbfazwmvypl90lrbn8qyqpwv06r3ly-sta-x86_64-unknown-linux-gnufilc0-unstable-2021-11-30.drv^*' failed
End of log