data/stacks-2.54+dfsg/tests/kmer_filter.t: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/tests/process_radtags.t: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/tests/ustacks.t: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/tests/pstacks.t: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/README: ASCII text data/stacks-2.54+dfsg/LICENSE: ASCII text data/stacks-2.54+dfsg/INSTALL: ASCII text data/stacks-2.54+dfsg/autogen.sh: POSIX shell script, ASCII text executable data/stacks-2.54+dfsg/ChangeLog: UTF-8 Unicode text data/stacks-2.54+dfsg/acinclude.m4: C++ source, ASCII text data/stacks-2.54+dfsg/scripts/extract_interpop_chars.pl: Perl script text executable data/stacks-2.54+dfsg/scripts/stacks-dist-extract: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/scripts/stacks-count-reads-per-sample-per-locus: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/scripts/stacks-integrate-alignments: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/scripts/stacks-samtools-tview: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/scripts/ref_map.pl: Perl script text executable data/stacks-2.54+dfsg/scripts/denovo_map.pl: Perl script text executable data/stacks-2.54+dfsg/scripts/stacks-gdb: Bourne-Again shell script, ASCII text executable data/stacks-2.54+dfsg/scripts/convert_stacks.pl: Perl script text executable data/stacks-2.54+dfsg/scripts/stacks-hist2d-loci-samples-coverage: a /usr/bin/r script, ASCII text executable data/stacks-2.54+dfsg/scripts/count_fixed_catalog_snps.py: Python script, ASCII text executable data/stacks-2.54+dfsg/scripts/integrate_alignments.py: Python script, ASCII text executable data/stacks-2.54+dfsg/src/DNANSeq.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/cstacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/nucleotides.cc: C source, ASCII text data/stacks-2.54+dfsg/src/file_io.cc: C source, ASCII text data/stacks-2.54+dfsg/src/process_radtags.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/mstack.cc: C source, ASCII text data/stacks-2.54+dfsg/src/write.h: C source, ASCII text data/stacks-2.54+dfsg/src/gzFasta.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/nucleotides.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/cmb.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/Hwp.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/ordered.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/populations.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/aln_utils.h: C source, ASCII text data/stacks-2.54+dfsg/src/log_utils.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/export_formats.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/phasedstacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/PopSum.cc: C source, ASCII text data/stacks-2.54+dfsg/src/genotype_dictionaries.h: C source, ASCII text data/stacks-2.54+dfsg/src/renz.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/Seq.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/export_formats.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/clean.cc: C source, ASCII text data/stacks-2.54+dfsg/src/ustacks.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/bootstrap.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/mstack.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/stacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/clone_filter.cc: C source, ASCII text data/stacks-2.54+dfsg/src/locus_readers.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/GappedAln.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/BamI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/process_radtags.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/PopSum.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/smoothing.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/models.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/kmers.cc: C source, ASCII text data/stacks-2.54+dfsg/src/ustacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/mapping_utils.cc: C source, ASCII text data/stacks-2.54+dfsg/src/kmers.h: C source, ASCII text data/stacks-2.54+dfsg/src/write.cc: C source, ASCII text data/stacks-2.54+dfsg/src/gstacks.cc: C source, ASCII text data/stacks-2.54+dfsg/src/mapping_utils.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/DNANSeq.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/clone_filter.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/genotype_dictionaries.cc: C source, ASCII text data/stacks-2.54+dfsg/src/mst.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/FastaI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/catalog_utils.h: C source, ASCII text data/stacks-2.54+dfsg/src/DNASeq.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/gzFastq.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/BustardI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/sstacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/Tsv.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/kmer_filter.cc: C source, ASCII text data/stacks-2.54+dfsg/src/kmer_filter.h: C source, ASCII text data/stacks-2.54+dfsg/src/Alignment.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/DNASeq4.cc: C source, ASCII text data/stacks-2.54+dfsg/src/sql_utilities.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/BowtieI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/constants.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/Seq.cc: C source, ASCII text data/stacks-2.54+dfsg/src/renz.h: C source, ASCII text data/stacks-2.54+dfsg/src/populations.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/DNASeq4.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/SamI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/locus.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/phasedstacks.cc: C source, UTF-8 Unicode text data/stacks-2.54+dfsg/src/process_shortreads.cc: C source, ASCII text data/stacks-2.54+dfsg/src/smoothing_utils.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/SuffixTree.cc: C source, ASCII text data/stacks-2.54+dfsg/src/aln_utils.cc: C source, ASCII text data/stacks-2.54+dfsg/src/input.cc: C source, ASCII text data/stacks-2.54+dfsg/src/PopMap.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/MetaPopInfo.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/cstacks.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/tsv2bam.cc: C source, ASCII text data/stacks-2.54+dfsg/src/Vcf.cc: C source, ASCII text data/stacks-2.54+dfsg/src/gzFasta.cc: C source, ASCII text data/stacks-2.54+dfsg/src/sstacks.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/SuffixTree.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/mst.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/locus.cc: C source, ASCII text data/stacks-2.54+dfsg/src/process_shortreads.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/FastqI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/gstacks.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/stacks.cc: C source, ASCII text data/stacks-2.54+dfsg/src/input.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/MetaPopInfo.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/BamUnalignedI.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/cmb.cc: C source, ASCII text data/stacks-2.54+dfsg/src/Hwp.cc: C source, ASCII text data/stacks-2.54+dfsg/src/catalog_utils.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/sql_utilities.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/debruijn.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/utils.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/BamI.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/file_io.h: C source, ASCII text data/stacks-2.54+dfsg/src/DNASeq.cc: C source, ASCII text data/stacks-2.54+dfsg/src/Vcf.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/models.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/debruijn.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/log_utils.cc: C++ source, ASCII text data/stacks-2.54+dfsg/src/constants.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/clean.h: C++ source, ASCII text data/stacks-2.54+dfsg/src/utils.h: C++ source, ASCII text data/stacks-2.54+dfsg/debian/NEWS: ASCII text data/stacks-2.54+dfsg/debian/README.Debian: ASCII text data/stacks-2.54+dfsg/debian/bin/stacks: POSIX shell script, ASCII text executable data/stacks-2.54+dfsg/debian/changelog: ASCII text data/stacks-2.54+dfsg/debian/control: ASCII text data/stacks-2.54+dfsg/debian/copyright: UTF-8 Unicode text data/stacks-2.54+dfsg/debian/patches/2to3.patch: unified diff output, ASCII text data/stacks-2.54+dfsg/debian/patches/RisR.patch: unified diff output, ASCII text data/stacks-2.54+dfsg/debian/patches/script-exe-paths: unified diff output, ASCII text data/stacks-2.54+dfsg/debian/patches/series: ASCII text data/stacks-2.54+dfsg/debian/patches/use_debian_packaged_htslib.patch: unified diff output, ASCII text data/stacks-2.54+dfsg/debian/rules: a /usr/bin/make -f script, ASCII text executable data/stacks-2.54+dfsg/debian/salsa-ci.yml: ASCII text data/stacks-2.54+dfsg/debian/source/format: ASCII text data/stacks-2.54+dfsg/debian/stacks.install: ASCII text data/stacks-2.54+dfsg/debian/upstream/metadata: ASCII text data/stacks-2.54+dfsg/debian/watch: ASCII text data/stacks-2.54+dfsg/.pc/.version: ASCII text data/stacks-2.54+dfsg/.pc/.quilt_patches: ASCII text data/stacks-2.54+dfsg/.pc/.quilt_series: ASCII text data/stacks-2.54+dfsg/.pc/applied-patches: ASCII text data/stacks-2.54+dfsg/.pc/RisR.patch/scripts/stacks-hist2d-loci-samples-coverage: a /usr/bin/env Rscript script, ASCII text executable data/stacks-2.54+dfsg/.pc/script-exe-paths/Makefile.am: automake makefile script, ASCII text data/stacks-2.54+dfsg/.pc/use_debian_packaged_htslib.patch/Makefile.am: automake makefile script, ASCII text data/stacks-2.54+dfsg/.pc/use_debian_packaged_htslib.patch/configure.ac: M4 macro processor script, ASCII text data/stacks-2.54+dfsg/.pc/2to3.patch/scripts/count_fixed_catalog_snps.py: Python script, ASCII text executable data/stacks-2.54+dfsg/.pc/2to3.patch/scripts/integrate_alignments.py: Python script, ASCII text executable data/stacks-2.54+dfsg/Makefile.am: automake makefile script, ASCII text data/stacks-2.54+dfsg/configure.ac: M4 macro processor script, ASCII text