[*] /home/pbulk/build/biology/rna-star/work/.tools/bin/pwd
<.> pwd 
[*] /home/pbulk/build/biology/rna-star/work/.tools/bin/echo BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c
<.> echo  BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c
[*] c++ -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:38:38+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -MM BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c parametersDefault.xxd
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:38:38+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -MM BAMbinSortByCoordinate.cpp BAMbinSortUnmapped.cpp BAMfunctions.cpp BAMoutput.cpp Chain.cpp ChimericAlign.cpp ChimericAlign_chimericBAMoutput.cpp ChimericAlign_chimericJunctionOutput.cpp ChimericAlign_chimericStitching.cpp ChimericDetection.cpp ChimericDetection_chimericDetectionMult.cpp ChimericSegment.cpp ClipCR4.cpp ClipMate_clip.cpp ClipMate_clipChunk.cpp ClipMate_initialize.cpp ErrorWarning.cpp GTF.cpp GTF_superTranscript.cpp GTF_transcriptGeneSJ.cpp Genome.cpp Genome_genomeGenerate.cpp Genome_genomeLoad.cpp Genome_genomeOutLoad.cpp Genome_insertSequences.cpp Genome_transformGenome.cpp GlobalVariables.cpp InOutStreams.cpp OutSJ.cpp PackedArray.cpp Parameters.cpp ParametersChimeric_initialize.cpp ParametersClip_initialize.cpp ParametersGenome.cpp ParametersSolo.cpp Parameters_closeReadsFiles.cpp Parameters_openReadsFiles.cpp Parameters_readFilesInit.cpp Parameters_readSAMheader.cpp Parameters_samAttributes.cpp Quantifications.cpp ReadAlign.cpp ReadAlignChunk.cpp ReadAlignChunk_mapChunk.cpp ReadAlignChunk_processChunks.cpp ReadAlign_CIGAR.cpp ReadAlign_alignBAM.cpp ReadAlign_assignAlignToWindow.cpp ReadAlign_calcCIGAR.cpp ReadAlign_chimericDetection.cpp ReadAlign_chimericDetectionOld.cpp ReadAlign_chimericDetectionOldOutput.cpp ReadAlign_chimericDetectionPEmerged.cpp ReadAlign_createExtendWindowsWithAlign.cpp ReadAlign_mapOneRead.cpp ReadAlign_mapOneReadSpliceGraph.cpp ReadAlign_mappedFilter.cpp ReadAlign_maxMappableLength2strands.cpp ReadAlign_multMapSelect.cpp ReadAlign_oneRead.cpp ReadAlign_outputAlignments.cpp ReadAlign_outputSpliceGraphSAM.cpp ReadAlign_outputTranscriptCIGARp.cpp ReadAlign_outputTranscriptSAM.cpp ReadAlign_outputTranscriptSJ.cpp ReadAlign_outputVariation.cpp ReadAlign_peOverlapMergeMap.cpp ReadAlign_quantTranscriptome.cpp ReadAlign_stitchPieces.cpp ReadAlign_stitchWindowSeeds.cpp ReadAlign_storeAligns.cpp ReadAlign_transformGenome.cpp ReadAlign_waspMap.cpp STAR.cpp SequenceFuns.cpp SharedMemory.cpp Solo.cpp SoloBarcode.cpp SoloBarcode_extractBarcode.cpp SoloFeature.cpp SoloFeature_addBAMtags.cpp SoloFeature_cellFiltering.cpp SoloFeature_collapseUMI_Graph.cpp SoloFeature_collapseUMIall.cpp SoloFeature_countCBgeneUMI.cpp SoloFeature_countSmartSeq.cpp SoloFeature_countVelocyto.cpp SoloFeature_emptyDrops_CR.cpp SoloFeature_loadRawMatrix.cpp SoloFeature_outputResults.cpp SoloFeature_processRecords.cpp SoloFeature_quantTranscript.cpp SoloFeature_redistributeReadsByCB.cpp SoloFeature_statsOutput.cpp SoloFeature_sumThreads.cpp SoloRead.cpp SoloReadBarcode.cpp SoloReadBarcode_getCBandUMI.cpp SoloReadFeature.cpp SoloReadFeature_inputRecords.cpp SoloReadFeature_record.cpp SoloRead_record.cpp SpliceGraph.cpp SpliceGraph_findSuperTr.cpp SpliceGraph_swScoreSpliced.cpp SpliceGraph_swTraceBack.cpp Stats.cpp SuffixArrayFuns.cpp SuperTranscriptome.cpp ThreadControl.cpp TimeFunctions.cpp Transcript.cpp Transcript_alignScore.cpp Transcript_convertGenomeCigar.cpp Transcript_generateCigarP.cpp Transcript_transformGenome.cpp Transcript_variationAdjust.cpp Transcript_variationOutput.cpp Transcriptome.cpp Transcriptome_alignExonOverlap.cpp Transcriptome_classifyAlign.cpp Transcriptome_geneCountsAddAlign.cpp Transcriptome_geneFullAlignOverlap.cpp Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp Transcriptome_quantAlign.cpp Variation.cpp bamRemoveDuplicates.cpp bamSortByCoordinate.cpp binarySearch2.cpp blocksOverlap.cpp extendAlign.cpp funCompareUintAndSuffixes.cpp funCompareUintAndSuffixesMemcmp.cpp genomeParametersWrite.cpp genomeSAindex.cpp genomeScanFastaFiles.cpp insertSeqSA.cpp mapThreadsSpawn.cpp outputSJ.cpp readLoad.cpp samHeaders.cpp serviceFuns.cpp signalFromBAM.cpp sjAlignSplit.cpp sjdbBuildIndex.cpp sjdbInsertJunctions.cpp sjdbLoadFromFiles.cpp sjdbLoadFromStream.cpp sjdbPrepare.cpp soloInputFeatureUMI.cpp stitchAlignToTranscript.cpp stitchGapIndel.cpp stitchWindowAligns.cpp streamFuns.cpp stringSubstituteAll.cpp sysRemoveDir.cpp systemFunctions.cpp twoPassRunPass1.cpp bam_cat.c parametersDefault.xxd
[*] /home/pbulk/build/biology/rna-star/work/.tools/bin/pwd
<.> pwd 
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include systemFunctions.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations systemFunctions.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_collapseUMI_Graph.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_collapseUMI_Graph.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_collapseUMIall.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_collapseUMIall.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ParametersClip_initialize.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ParametersClip_initialize.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ClipMate_clip.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ClipMate_clip.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ClipCR4.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ClipCR4.cpp
[*] c++ -c -I./ -std=c++11 -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include -mavx2 opal.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I./ -std=c++11 -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -mavx2 opal.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ClipMate_clipChunk.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ClipMate_clipChunk.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ClipMate_initialize.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ClipMate_initialize.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_loadRawMatrix.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_loadRawMatrix.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_emptyDrops_CR.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_emptyDrops_CR.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include soloInputFeatureUMI.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations soloInputFeatureUMI.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_countSmartSeq.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_countSmartSeq.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_redistributeReadsByCB.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_redistributeReadsByCB.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_quantTranscript.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_quantTranscript.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_sumThreads.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_sumThreads.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_countVelocyto.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_countVelocyto.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_countCBgeneUMI.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_countCBgeneUMI.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Transcriptome_classifyAlign.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Transcriptome_classifyAlign.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Transcriptome_geneFullAlignOverlap_ExonOverIntron.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_cellFiltering.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_cellFiltering.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_statsOutput.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_statsOutput.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include bamSortByCoordinate.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations bamSortByCoordinate.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloBarcode.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloBarcode.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ParametersSolo.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ParametersSolo.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloRead.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloRead.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloRead_record.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloRead_record.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloReadBarcode.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloReadBarcode.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloReadBarcode_getCBandUMI.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloReadBarcode_getCBandUMI.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloBarcode_extractBarcode.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloBarcode_extractBarcode.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloReadFeature.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloReadFeature.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloReadFeature_record.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloReadFeature_record.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloReadFeature_inputRecords.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloReadFeature_inputRecords.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Solo.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Solo.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_outputResults.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_outputResults.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_processRecords.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_processRecords.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SoloFeature_addBAMtags.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SoloFeature_addBAMtags.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ReadAlign_transformGenome.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ReadAlign_transformGenome.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Genome_transformGenome.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Genome_transformGenome.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Transcript_convertGenomeCigar.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Transcript_convertGenomeCigar.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include twoPassRunPass1.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations twoPassRunPass1.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include samHeaders.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations samHeaders.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Genome_genomeLoad.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Genome_genomeLoad.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Genome_genomeOutLoad.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Genome_genomeOutLoad.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include Transcript_transformGenome.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations Transcript_transformGenome.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ReadAlign_outputSpliceGraphSAM.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ReadAlign_outputSpliceGraphSAM.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ReadAlign_mapOneReadSpliceGraph.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ReadAlign_mapOneReadSpliceGraph.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SpliceGraph.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SpliceGraph.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SpliceGraph_swScoreSpliced.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SpliceGraph_swScoreSpliced.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SpliceGraph_swTraceBack.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SpliceGraph_swTraceBack.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SpliceGraph_findSuperTr.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SpliceGraph_findSuperTr.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include sjAlignSplit.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations sjAlignSplit.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include GTF.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations GTF.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include GTF_transcriptGeneSJ.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations GTF_transcriptGeneSJ.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include GTF_superTranscript.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations GTF_superTranscript.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SuperTranscriptome.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SuperTranscriptome.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ReadAlign_outputAlignments.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ReadAlign_outputAlignments.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include ReadAlign.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations ReadAlign.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include STAR.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations STAR.cpp
[*] c++ -c -I/opt/pkg/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations -I/opt/pkg/include SharedMemory.cpp
<.> /home/pbulk/build/biology/rna-star/work/.gcc/bin/g++ -m64 -fstack-protector-strong -D_FORTIFY_SOURCE=2 -c -I/home/pbulk/build/biology/rna-star/work/.buildlink/include -std=c++11 -fopenmp '-DCOMPILATION_TIME_PLACE="2024-02-18T08:39:10+0000 :/home/pbulk/build/biology/rna-star/work/STAR-2.7.10b/source"' '-DGIT_BRANCH_COMMIT_DIFF=""' -pipe -O2 -msave-args -fno-aggressive-loop-optimizations SharedMemory.cpp