Bottle all the bioinformatic things

[sjackman]

• a5 a5: patchelf: cannot find section .dynamic: Blocked by patchelf #15
• abacas abacas: Build a bottle for Linuxbrew: bottle :unneeded #16
• abyss-explorer abyss-explorer: Build a bottle for Linuxbrew #17
• abyss
• ace-corrector ace-corrector: Build a bottle for Linuxbrew #18
• allpaths-lg allpaths-lg: Failed to upload the bottle to Bintray #19
• amos amos: Unsatisfied dependency: Statistics::Descriptive #20
• andi andi: Build a bottle for Linuxbrew #21
• aragorn aragorn: Build a bottle for Linuxbrew #22
• art art: Error: --keep-old is passed but there are changes in: cellar #23
• artemis artemis: Build a bottle for Linuxbrew #24
• astral bottle :unneeded
• atram atram: Build a bottle for Linuxbrew #238
• augustus augustus: Build a bottle for Linuxbrew #25
• bam-readcount bam-readcount: Build a bottle for Linuxbrew #29
• bamhash bamhash: Build a bottle for Linuxbrew #30
• bamtools bamtools: Build a bottle for Linuxbrew #14
• bamutil bamutil: Build a bottle for Linuxbrew #31
• barrnap barrnap: patchelf: not an ELF executable: Blocked by patchelf #32
• bcalm bcalm: Build a bottle for Linuxbrew #33
• bcftools bcftools: Build a bottle for Linuxbrew #34
• beagle beagle: Build a bottle for Linuxbrew #35
• beast beast: Build a bottle for Linuxbrew #36
• bedops bedops: patchelf: cannot find section .dynamic: Blocked by patchelf #37
• bedtools bedtools: Build a bottle for Linuxbrew #38
• beetl https://github.com/Homebrew/homebrew-science/pull/3922
• bfc bfc: Build a bottle for Linuxbrew #6
• bioawk bioawk: Build a bottle for Linuxbrew #39
• biobloomtools biobloomtools: Build a bottle for Linuxbrew #40
• biointerchange biointerchange: bottle :unneeded #41
• blasr blasr: Build a bottle for Linuxbrew #42
• blast blast: Your build has exceeded the memory limit #12
• blat blat: Build a bottle for Linuxbrew #43
• bless bless: Build a bottle for Linuxbrew: Blocked by kmc #28 #44
• bowtie bowtie: Build a bottle for Linuxbrew #45
• bowtie2 bowtie2: Build a bottle for Linuxbrew #46
• bpipe bpipe: Build a bottle for Linuxbrew #47
• busco https://github.com/Homebrew/homebrew-science/pull/3883
• bwa bwa: Build a bottle for Linuxbrew #7
• canu canu: Build a bottle for Linuxbrew #50
• cap3 cap3: Build a bottle for Linuxbrew #51
• cd-hit cd-hit: Build a bottle for Linuxbrew #52
• cegma cegma: Build a bottle for Linuxbrew: Blocked by genewise #49 #53
• celera-assembler celera-assembler: patchelf: cannot find section .dynamic: Blocked by patchelf #54
• cerulean cerulean: Error: --keep-old is passed but there are changes in: cellar #55
• circlator circlator: Build a bottle for Linuxbrew #259 https://github.com/Homebrew/homebrew-science/pull/4050
• clark clark: Warning: Formula reports different SHA256 #56
• clonalframeml clonalframeml: Build a bottle for Linuxbrew #57
• clustal-omega clustal-omega: Build a bottle for Linuxbrew #58
• clustal-w clustal-w: Build a bottle for Linuxbrew #59
• corset corset: undefined reference to `deflateInit2_' #60
• cytoscape cytoscape: Build a bottle for Linuxbrew #61
• daligner daligner: Build a bottle for Linuxbrew #62
• dazz_db dazz_db: Build a bottle for Linuxbrew #63
• delly https://github.com/Homebrew/homebrew-science/pull/3878
• dextractor dextractor: Build a bottle for Linuxbrew #64
• diamond diamond: Build a bottle for Linuxbrew #65
• dida dida: Build a bottle for Linuxbrew #66
• discovar discovar: Error: --keep-old is passed but there are changes in: cellar #67
• discovardenovo discovardenovo: Failed to upload the bottle to Bintray #68
• dsk dsk: Build a bottle for Linuxbrew #69
• edirect edirect: Formula reports different SHA256 #70
• ensembl-tools ensembl-tools: Depends on unzip. You do not have 'Archive::Zip' installed #71
• exonerate exonerate: Build a bottle for Linuxbrew #72
• express express: Disable bottle for Mac OS: undefined reference to `deflateInit2_' #239
• fasta fasta: Build a bottle for Linuxbrew #76
• fastml fastml: Build a bottle for Linuxbrew #77
• fastq-tools fastq-tools: Depends on pcre #78
• fastqc fastqc: Build a bottle for Linuxbrew #79
• fasttree fasttree: Build a bottle for Linuxbrew #80
• fastuniq fastuniq: Build a bottle for Linuxbrew #81
• fermi fermi: Build a bottle for Linuxbrew #82
• fermi2 fermi2: Build a bottle for Linuxbrew #74
• fermikit fermikit: Build a bottle for Linuxbrew #83
• flash flash: Build a bottle for Linuxbrew #84
• fqzcomp fqzcomp: Build a bottle for Linuxbrew #85
• freec freec: Formula reports different SHA256 #86
• fsa fsa: Build a bottle for Linuxbrew #87
• fwdpp https://github.com/Homebrew/homebrew-science/pull/3812
• gaemr gaemr: Depends on Biopython #89
• garli garli: configure: error: NCL 2.1 or higher is a prerequisite for building Garli #90
• gatb gatb: Build a bottle for Linuxbrew #91
• geneid geneid: Build a bottle for Linuxbrew #48
• genewise genewise: undefined reference to `g_hash_table_foreach_remove' #49
• genometools genometools: Build a bottle for Linuxbrew #92
• gingr gingr: Build a bottle for Linuxbrew #93
• glimmerhmm glimmerhmm: Build a bottle for Linuxbrew #94
• glpk glpk: Build a bottle for Linuxbrew #217
• gmap-gsnap gmap-gsnap: Build a bottle for Linuxbrew #95
• grabix grabix: Build a bottle for Linuxbrew #96
• graphlan graphlan: Unsatisfied dependency: biopython #97
• gubbins gubbins: Build a bottle for Linuxbrew: Blocked by numpy #258
• harvest-tools harvest-tools: error: Import failed: /capnp/c++.capnp #100
• hdf5 hdf5: Build a bottle for Linuxbrew #27
• hisat hisat: Build a bottle for Linuxbrew #101
• hisat2 hisat2: Build a bottle for Linuxbrew #102
• hlaminer hlaminer: Build a bottle for Linuxbrew #103
• hmmer hmmer: Build a bottle for Linuxbrew #26
• hmmer2 hmmer2: Build a bottle for Linuxbrew #104
• htsbox htsbox: Build a bottle for Linuxbrew #75
• htslib htslib: Build a bottle for Linuxbrew #5
• humann2 humann2: Build a bottle for Linuxbrew #105
• idba idba: Build a bottle for Linuxbrew #108
• igraph igraph: Build a bottle for Linuxbrew #218
• igv bottle :unneeded
• igvtools igvtools: bottle :unneeded #109
• infernal infernal: Build a bottle for Linuxbrew #110
• iva iva: Build a bottle for Linuxbrew: Blocked by numpy #260
• jellyfish-1.1 jellyfish-1.1: Build a bottle for Linuxbrew #111
• jellyfish jellyfish: Build a bottle for Linuxbrew #112
• kallisto kallisto: Build a bottle for Linuxbrew #114
• kat kat: Build a bottle for Linuxbrew #115 kat: Cannot find boost library #262
• kmc kmc: g++-4.8: error: unrecognized command line option ‘-std=c++14’ #28
• kmergenie kmergenie: Build a bottle for Linuxbrew: Blocked by r: #113  #116
• kmerstream kmerstream: Build a bottle for Linuxbrew #8
• last last: Build a bottle for Linuxbrew #117
• libsequence libsequence: Build a bottle for Linuxbrew #118
• lighter lighter: Build a bottle for Linuxbrew #119
• links-scaffolder links-scaffolder: bottle :unneeded: Unsatisfied dependency: Bloom::Faster #120
• lobstr lobstr: Build a bottle for Linuxbrew #261
• lumpy-sv lumpy-sv: Build a bottle for Linuxbrew #121
• mafft mafft: Build a bottle for Linuxbrew #127
• maker maker: Unsatisfied dependency: Bio::Perl #128
• mapsembler2 mapsembler2: Error: --keep-old is passed but there are changes in: cellar #129
• maq maq: Build a bottle for Linuxbrew #130
• mash mash: error: Import failed: /capnp/c++.capnp #131
• mcl https://github.com/Homebrew/homebrew-science/pull/3906
• masurca masurca: Build a bottle for Linuxbrew #132
• megahit megahit: Depends on :python #133
• meme meme: The Open MPI wrapper compiler was unable to find the specified compiler #134
• meraculous meraculous: Error: Failed to download resource "meraculous" #135
• metaphlan metaphlan: test: ImportError: No module named numpy #99
• mhap mhap: Build a bottle for Linuxbrew #136
• minced minced: Build a bottle for Linuxbrew #137
• minia minia: Build a bottle for Linuxbrew #138
• miniasm miniasm: Build a bottle for Linuxbrew #139
• minimap minimap: Build a bottle for Linuxbrew #126
• mira mira: configure: error: Could not link against boost_regex-boost_regex-mt #140
• mitofy mitofy: patchelf: not an ELF executable: Blocked by patchelf #141
• mlst mlst: Unsatisfied dependency: Moo List::MoreUtils #142
• mrbayes mrbayes: Build a bottle for Linuxbrew #143
• multi-worm-tracker multi-worm-tracker: Build a bottle for Linuxbrew #144
• mummer mummer: Test fails: Can't use 'defined(%hash)' #13
• muscle muscle: Build a bottle for Linuxbrew #145
• nanopolish nanopolish: Build a bottle for Linuxbrew #146
• ncbi-c++-toolkit ncbi-c++-toolkit: took more than 10 minutes since last output #147
• ncl ncl: Build a bottle for Linuxbrew #88
• newick-utils newick-utils: Build a bottle for Linuxbrew #148
• newicktools newicktools: Depends on flex #149
• nextflow nextflow: Build a bottle for Linuxbrew #150
• nonpareil nonpareil: Build a bottle for Linuxbrew: Blocked by r #113 #151
• novoalign novoalign: patchelf: cannot find section .dynamic: Blocked by patchelf #152
• nxtrim nxtrim: Build a bottle for Linuxbrew #9
• oases oases: Build a bottle for Linuxbrew #154
• ogdraw ogdraw: Unsatisfied dependency: Bio::Perl #155
• openblas openblas: Build a bottle for Linuxbrew #240
• orthofinder https://github.com/Homebrew/homebrew-science/pull/3904
• paml paml: Build a bottle for Linuxbrew #158
• pandaseq pandaseq: Depends on zlib #159
• parsnp parsnp: bottle :unneeded #160
• pathd8 pathd8: Build a bottle for Linuxbrew #161
• pathvisio pathvisio: bottle :unneeded #162
• pbsuite pbsuite: bottle :unneeded #163
• pear pear: Build a bottle for Linuxbrew #164
• phipack phipack: patchelf: not an ELF executable: Blocked by patchelf #237
• phylip phylip: Conflicts with coreutils #165
• phyml phyml: Build a bottle for Linuxbrew #166
• phyutility phyutility: bottle :unneeded #167
• picard-tools picard-tools: Build a bottle for Linuxbrew #168
• piler piler: Build a bottle for Linuxbrew #169
• pilercr pilercr: Build a bottle for Linuxbrew #170
• pilon https://github.com/Homebrew/homebrew-science/pull/3887
• plink plink: Build a bottle for Linuxbrew #171
• plink2 plink2: ld: cannot find -lcblas -latlas #172
• poa poa: Build a bottle for Linuxbrew #173
• populations populations: Build a bottle for Linuxbrew #174
• poretools poretools: unrecognized command line option '-R' #277
• prodigal prodigal: Build a bottle for Linuxbrew #156
• prokka prokka: Unsatisfied dependency: Bio::Perl #175
• proteinortho proteinortho: Build a bottle for Linuxbrew #176
• psmc psmc: Build a bottle for Linuxbrew #177
• quake quake: Build a bottle for Linuxbrew: Blocked by r #113 #178
• quast quast: patchelf: not an ELF executable #179
• quest quest: Build a bottle for Linuxbrew #182
• quorum quorum: Error: Failed to download resource "quorum" #183
• r r: Depends on curl for Linuxbrew #113
• r8s r8s: Error: Failed to download resource "r8s" #184
• rampart rampart: Build a bottle for Linuxbrew: Unsatisfied dependency: matplotlib #185
• raxml raxml: Build a bottle for Linuxbrew #186
• ray ray: The Open MPI wrapper compiler was unable to find the specified compiler #187
• rcorrector https://github.com/Homebrew/homebrew-science/pull/3882
• readseq readseq: Build a bottle for Linuxbrew #188
• readsim readsim: Build a bottle for Linuxbrew #189
• reapr reapr: Build a bottle for Linuxbrew: undefined reference to BamTools::SamHeader::SamHeader #190
• recon recon: Build a bottle for Linuxbrew #180
• repeatmasker repeatmasker: Build a bottle for Linuxbrew #124
• repeatmodeler repeatmodeler: Build a bottle for Linuxbrew #191
• repeatscout repeatscout: Build a bottle for Linuxbrew #181
• rmblast rmblast: Build a bottle for Linuxbrew #122
• rna-star rna-star: Build a bottle for Linuxbrew #192
• rnammer rnammer: Build a bottle for Linuxbrew #193
• ropebwt2 ropebwt2: Build a bottle for Linuxbrew #73
• sailfish sailfish: Build a bottle for Linuxbrew #195
• salmon https://github.com/Homebrew/homebrew-science/pull/3407
• sambamba sambamba: Error: no property 'representation' for type 'string' #196
• samblaster samblaster: Build a bottle for Linuxbrew #197
• samtools-0.1 samtools-0.1: Depends on ncurses for Linuxbrew #198
• samtools samtools: Depends on ncurses for Linuxbrew #10
• scarpa scarpa: Build a bottle for Linuxbrew #199
• seqan bottle :unneeded
• seqtk seqtk: Build a bottle for Linuxbrew #4
• sga https://github.com/Homebrew/homebrew-science/pull/3842
• shrimp shrimp: Build a bottle for Linuxbrew #200
• sickle sickle: Build a bottle for Linuxbrew #201
• simulate-pcr simulate-pcr: Unsatisfied dependency: Bio::Perl #202
• skewer skewer: Build a bottle for Linuxbrew #203
• smalt smalt: Build a bottle for Linuxbrew #106
• smrtanalysis bottle :unneeded
• snap-aligner snap-aligner: Build a bottle for Linuxbrew #204
• snap snap: Build a bottle for Linuxbrew #125
• snoscan snoscan: Build a bottle for Linuxbrew #241
• snp-sites snp-sites: Build a bottle for Linuxbrew #205
• snpeff snpeff: Build a bottle for Linuxbrew #206
• soapdenovo soapdenovo: Build a bottle for Linuxbrew #207
• sortmerna sortmerna: Build a bottle for Linuxbrew: install: will not overwrite just-created #208
• spades spades: Build a bottle for Linuxbrew #209
• spici spici: Build a bottle for Linuxbrew #210
• squeezambler squeezambler: Error: --keep-old is passed but there are changes in: cellar #211
• sratoolkit sratoolkit: Build a bottle for Linuxbrew #212
• ssake ssake: Build a bottle for Linuxbrew #213
• sspace-longread sspace-longread: SSPACE-LongRead.pl: No such file or directory #214
• stacks stacks: Build a bottle for Linuxbrew #215
• stringtie stringtie: Build a bottle for Linuxbrew #216
• tasr tasr: Build a bottle for Linuxbrew #98
• tbl2asn tbl2asn: Build a bottle for Linuxbrew #157
• tophat tophat: Build a bottle for Linuxbrew #256
• trans-abyss trans-abyss: Build a bottle for Linuxbrew: Unsatisfied dependency: pysam #219
• transdecoder transdecoder: Build a bottle for Linuxbrew #220
• transrate-tools transrate-tools: Build a bottle for Linuxbrew #221
• trf trf: Build a bottle for Linuxbrew #123
• trimadap trimadap: Build a bottle for Linuxbrew #11
• trimal trimal: Build a bottle for Linuxbrew #222
• trimmomatic trimmomatic: Build a bottle for Linuxbrew #107
• trinity trinity: Build a bottle for Linuxbrew #223
• trnascan trnascan: Build a bottle for Linuxbrew #224
• ucsc-genome-browser ucsc-genome-browser: Blocked by mysql Linuxbrew/homebrew-core#60 #225
• uproc uproc: Build a bottle for Linuxbrew #226
• vague vague: Error: --keep-old is passed but there are changes in: cellar #227
• varscan varscan: Error: --keep-old is passed but there are changes in: cellar #228
• vcake vcake: Build a bottle for Linuxbrew #229
• vcflib vcflib: Build a bottle for Linuxbrew #230
• vcftools vcftools: Build a bottle for Linuxbrew #231
• velvet velvet: Build a bottle for Linuxbrew #153
• velvetoptimiser velvetoptimiser: Unsatisfied dependency: Bio::Perl #232
• viennarna viennarna: Error: No available formula with the name "linuxbrew/xorg/xorg" #233
• vsearch vsearch: Build a bottle for Linuxbrew #236
• weblogo weblogo: Build a bottle for Linuxbrew #234
• yaha yaha: Error: --keep-old is passed but there are changes in: cellar #235