| Next changeset 1:3c7c9396daaa (2017-10-31) |
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Commit message:
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper commit 9dbc338105e83091a636166030f618ec881c5f6f |
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added:
eggnog_mapper.xml test-data/DIA_nlim.emapper.seed_orthologs test-data/HMM_nlim.emapper.hmm_hits test-data/cached_locally/OG_fasta/thaNOG/1CB2A.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2B.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2C.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2D.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2E.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2F.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2G.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2H.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2I.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2J.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2K.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2M.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2N.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2P.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2Q.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2R.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2S.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2T.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2U.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2V.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2W.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2X.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2Y.fa test-data/cached_locally/OG_fasta/thaNOG/1CB2Z.fa test-data/cached_locally/eggnog.db test-data/cached_locally/eggnog_mapper.loc test-data/cached_locally/eggnog_proteins.dmnd test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3f test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3i test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3m test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3p test-data/make_comp_file.sh test-data/nlim_1033.fasta test-data/nlim_fragment.fasta tool-data/eggnog_mapper.loc.sample tool_data_table_conf.xml.sample tool_data_table_conf.xml.test |
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| diff -r 000000000000 -r f4e5279b5d10 eggnog_mapper.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/eggnog_mapper.xml Tue Oct 31 14:17:50 2017 -0400 |
| [ |
| b'@@ -0,0 +1,470 @@\n+<tool id="eggnog_mapper" name="eggNOG Mapper" version="1.0.1">\n+ <description>functional sequence annotation by orthology</description>\n+ <requirements>\n+ <requirement type="package" version="1.0.1">eggnog-mapper</requirement>\n+ </requirements>\n+ <version_command>emapper.py --version</version_command>\n+ <command detect_errors="aggressive"><![CDATA[\n+ emapper.py\n+ --data_dir \'$eggnog_data.fields.db\'\n+ -m $db.mode \n+ $translate\n+ #if ($db.mode == \'hmmer\'):\n+ --database=$db.database.fields.db\n+ #if $db.hmm_options.hmm_settings == \'specified\':\n+ --hmm_maxhits=$db.hmm_options.hmm_maxhits\n+ --hmm_evalue=$db.hmm_options.hmm_evalue\n+ --hmm_score=$db.hmm_options.hmm_score\n+ --hmm_maxseqlen=$db.hmm_options.hmm_maxseqlen\n+ #if str($db.hmm_options.hmm_qcov):\n+ --hmm_qcov=$db.hmm_options.hmm_qcov\n+ #end if\n+ --Z=$db.hmm_options.Z\n+ #end if\n+ #elif ($db.mode == \'diamond\'):\n+ --matrix \'$db.matrix_gapcosts.matrix\'\n+ $db.matrix_gapcosts.gap_costs\n+ #end if\n+ #if $annotation_options.tax_scope:\n+ --tax_scope=$annotation_options.tax_scope\n+ #end if\n+ #if $annotation_options.target_orthologs:\n+ --target_orthologs=$annotation_options.target_orthologs\n+ #end if\n+ #if $annotation_options.go_evidence:\n+ --go_evidence=$annotation_options.go_evidence\n+ #end if\n+ #if $seed_ortholog_options.seed_ortholog_evalue:\n+ --seed_ortholog_evalue=$seed_ortholog_options.seed_ortholog_evalue \n+ #end if\n+ #if str($seed_ortholog_options.seed_ortholog_score):\n+ --seed_ortholog_score=$seed_ortholog_options.seed_ortholog_score \n+ #end if\n+ $output_options.no_file_comments\n+ $output_options.no_annot\n+ $output_options.report_orthologs\n+ --output=\'results\'\n+ -i \'${input}\'\n+ ]]></command>\n+ <inputs>\n+ <param name="input" type="data" format="fasta" label="Fasta sequences to annotate"/>\n+ <param name="eggnog_data" type="select" label="Version of eggNOG Database">\n+ <options from_data_table="eggnog_mapper">\n+ <filter type="static_value" name="type" value="data" column="2"/>\n+ </options>\n+ </param>\n+ <param name="translate" type="boolean" truevalue="--translate" falsevalue="" checked="false"\n+ label="Are these coding DNA sequences that need to be translated?"/>\n+ <conditional name="db">\n+ <param name="mode" type="select" label="Annotation Type">\n+ <option value="hmmer">HMM</option>\n+ <option value="diamond">DIAMOND</option>\n+ </param>\n+ <when value="hmmer">\n+ <param name="database" type="select" label="HMM target database" help="Choose either the full eggNOG database or a subset of it. Contact your Galaxy admin to have additional HMM databases installed.">\n+ <options from_data_table="eggnog_mapper">\n+ <filter type="static_value" value="hmmer" column="2"/>\n+ <validator type="no_options" message="No HMM databases are available; request installation from your Galaxy admin." />\n+ </options>\n+ </param>\n+ <conditional name="hmm_options">\n+ <param name="hmm_settings" type="select" label="HMM Search Options">\n+ <option value="default">Use defaults</option>\n+ <option value="specified">Set HMM Search Options</option>\n+ </param>\n+ <when value="default"/>\n+ <when v'..b'name,orthologs"/>\n+ </actions>\n+ </data>\n+ </outputs>\n+ <tests>\n+ <test>\n+ <param name="input" value="nlim_fragment.fasta" ftype="fasta"/>\n+ <param name="database" value="ENOG411CB2I"/>\n+ <param name="mode" value="hmmer"/>\n+ <param name="test" value="true"/>\n+ <param name="eggnog_data" value="eggNOG_4.5"/>\n+ <param name="no_annot" value="true"/>\n+ <param name="no_file_comments" value="true"/>\n+ <output name="hmm_hits" file="HMM_nlim.emapper.hmm_hits" ftype="tabular"/>\n+ </test>\n+ <test>\n+ <param name="input" value="nlim_fragment.fasta" ftype="fasta"/>\n+ <param name="eggnog_data" value="eggNOG_4.5"/> <!-- not passed in test, but required for test to work -->\n+ <param name="no_annot" value="true"/>\n+ <param name="mode" value="diamond"/>\n+ <output name="seed_orthologs" file="DIA_nlim.emapper.seed_orthologs" ftype="tabular"/>\n+ </test>\n+ </tests>\n+ <help><![CDATA[\n+\n+eggnog-mapper\n+=============\n+Overview\n+--------\n+\n+``eggnog-mapper`` is a tool for fast functional annotation of novel sequences (genes or proteins) using precomputed eggNOG-based orthology assignments. \n+Obvious examples include the annotation of novel genomes, transcriptomes or even metagenomic gene catalogs. \n+The use of orthology predictions for functional annotation is considered more precise than traditional homology searches, \n+as it avoids transferring annotations from paralogs (duplicate genes with a higher chance of being involved in functional divergence).\n+\n+EggNOG-mapper is also available as a public online resource: `<http://beta-eggnogdb.embl.de/#/app/emapper>`_.\n+\n+Options\n+-------\n+\n+``eggnog-mapper`` can use two search algorithms: `HMMER <http://hmmer.org/>`_ and `DIAMOND <https://github.com/bbuchfink/diamond>`_. \n+HMMER is more sensitive, while DIAMOND is faster and useful for larger sets of query sequences. \n+\n+\n+Outputs\n+-------\n+\n+**hmm_hits**\n+\n+For each query sequence, a list of significant \n+hits to eggNOG Orthologous Groups (OGs) is reported. \n+Each line in the file represents a hit, where evalue, bit-score, \n+query-coverage and the sequence coordinates of the match are reported. \n+If multiple hits exist for a given query, results are sorted by e-value.\n+Only returned when using HMMER mode. \n+\n+**seed_orthologs**\n+\n+each line in the file provides the best match of each query within the best Orthologous Group (OG) \n+reported in the [project].hmm_hits file, obtained running PHMMER against all sequences within the best OG. \n+The seed ortholog is used to fetch fine-grained orthology relationships from eggNOG. \n+If using the diamond search mode, seed orthologs are directly \n+obtained from the best matching sequences by running DIAMOND against the whole eggNOG protein space.\n+\n+**annotations**\n+\n+This file provides final annotations of each query. Tab-delimited columns in the file are:\n+\n+- ``query_name``: query sequence name\n+- ``seed_eggNOG_ortholog``: best protein match in eggNOG\n+- ``seed_ortholog_evalue``: best protein match (e-value)\n+- ``seed_ortholog_score``: best protein match (bit-score)\n+- ``predicted_gene_name``: Predicted gene name for query sequences\n+- ``GO_terms``: Comma delimited list of predicted Gene Ontology terms\n+- ``KEGG_pathways``: Comma delimited list of predicted KEGG pathways\n+- ``Annotation_tax_scope``: The taxonomic scope used to annotate this query sequence\n+- ``Matching_OGs``: Comma delimited list of matching eggNOG Orthologous Groups\n+- ``best_OG|evalue|score``: Best matching Orthologous Groups (only in HMM mode)\n+- ``COG functional categories``: COG functional category inferred from best matching OG\n+- ``eggNOG_HMM_model_annotation``: eggNOG functional description inferred from best matching OG\n+\n+ ]]></help>\n+ <citations>\n+ <citation type="doi">10.1093/nar/gkv1248</citation>\n+ </citations>\n+</tool>\n' |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/DIA_nlim.emapper.seed_orthologs --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/DIA_nlim.emapper.seed_orthologs Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,1 @@ +Nlim_1033886738.Nlim_1033Cytidyltransferase-like 886738.Nlim_1033 5.4e-20 78.6 |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/HMM_nlim.emapper.hmm_hits --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/HMM_nlim.emapper.hmm_hits Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,1 @@ +Nlim_1033886738.Nlim_1033Cytidyltransferase-like ENOG411CB2I 2.3e-16 46.1 39 1 39 1 38 0.948717948718 |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2A.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2A.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,6 @@ +>1001994.MY1_1439 +MKIQIYILIGVVVLTLISVGIMTNQDQNTHENKIRVAYFPNISHAIPIVGIEKGFFSNHIGSDIDIQPILFDSGPQVIESIFAGSVDIAYVGPGPAINAFLKSEQHDVKILSGAASGGVSFIVHPKSEIKSVADFAGKRIAAPQIGNTQDISLRTYLSDNGLKPAEKGGSVIILNTGNSDIYILFAKGDIDGAWVPEPTATILVQQLGGTRLFNENELWPENKFATVVLIAKEEYVNSHPEIIQKWLEAHQQTADWINSNKEETKTIFFDFMKNEMGKSLPVELIDESLSNLEITSDPIVSSIDTIAKRADSLGYLGRHGYNLDGLFFDKNSNSQSQEVLVNNDQT +>436308.Nmar_1285 +MKIRSVIAAGIGAIIVFSALGIALSSSDTTYENKIRIAYFPNIGHAIPIVGMEKGFFAEHLGDDVKIETKVFDSGPQAIESLFANSIDIAYVGPGPAINGFLNSNNQNVKILAGAASGGASFIVHPDSEINTADDFAGKKIAAPQIGNTQDVSLRHFLAENQLKPAEKGGNVVVYNIPNPDIYTLFVKGDIDGAWVAEPWATILETELDGKRLFHEEELWPDKEFASVLLIGNVDYIDKNSVVWADYIRAHHETQIWIESNPIETRNVFNDFLDSYLGQSLSDDVVDVALSNIMITADPKPNSVVSFAEKADTLGYLGRNGYDLSGIFYSFDTNSLEEAST +>886738.Nlim_1020 +MKMRSIILAGIASIILILSVGIIVNTDGSTRENKIRVAYFPNITHVVPIIGLERGTFANEIGNTITIQPILFDSGPQVIESIFAGSVNIAYVGPGPAINGFLKSEHHNVKILSGAASGGVSFIVHPDSKINSAEDFIGKRIAAPQIGNSQDISLRTYLSANGLKPAEKGGSVIVLNVPNSDIYTLFAKGDIDAAWVAEPTATLLVQKLNGTRLFDEIDMWPDQKFASVLLIANEDYVNQHPEVIRKWLEAHQQTIDWINSNPEETRIIFNQFLKRELGKSLPDNLIDESLSKLQITSDPIVSSIETFAKRADSLGYLGRHGYSLDGIFFDINSNSQLQEVLIP |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2B.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2B.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,6 @@ +>1001994.MY1_0167 +MSYDGAIEALSTDALKFVKDDFVIGLGSGRAATAFVKSLSSFIKIKNYNIRGVPTSLQIKLIAEKGGIPLVEAEQVDHIDIVFDGADQIDSQKFVIKGGGGALLRENILFNLAKKVVVMADKSKFVKNFTRSVPVEVHPQARNLVTYEIKKLGGKAELRLIDRGYPFFTENGNIILDCDFGVIKNPKILSQKIKQVAGVIESGIFIRKPDVIYRAKTGGKFDII +>436308.Nmar_0218 +MSYDGAITALSNNALKFVKDDYVVGLGSGRAATVLVKSLGKLIKLKNYNIKGVPTSLQIKLIAEKVGIPLIEADQVEHIDVVFDGADQIDSQKFVIKGGGGALLRENILFSLAKKVVVMADKTKFVKNFTRTVPVEVHPLARNSVSKSMKKLGGKAELRSLDRGYPFFTENGNIILDCDFGTIKNPKALTQKIKATTGVLESGIFLRKPDVIYRAKTGEKFDIL +>886738.Nlim_1248 +MSYDDAIEALSTDALKFVKDGFVIGLGSGRAATSFVKSLSSFIKIKNYSIKAVPTSLQIKLIAEKGGIPLVEADHVEYIDVVFDGADQIDSQKFVIKGGGGALLRENILFNLSKKVVVMADKSKFVKNFTREVPVEVHPLARNSVIDAIRKLGGNAQLRSLDRGYPFFTENGNIILDCNFGTIKNPKSLTQKIKQITGVMESGIFLRKPDVIYKAKTGGKFEII |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2C.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2C.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,4 @@ +>1001994.MY1_1435 +MVQKEPFLTALQNRILLFDGAMGTEIQKYNPKPEDFPNNQDGFNDGLVITHPDWIKKIHKNYLDAGSDCIETNSFGSNKIKLDEYGFGDQTIEFNKKIAQLAVEVCSEYTDKPRYVIGSMGPSGYLPSSNDPDLGQKPLGEIRNAFELQAEGLILGGVDALLIETSQDILEVKLVIEACHNAMKKTGKKVPIIANTTLDQYGKMLLGTNIQAAYTTVSDMGIDVFGLNCSTGPAEMTPSVRWLDEQNEHNLLVVPNAGMPENQGGQAVYKMTPQKMGELLGDFLKQYKKVRIIGGCCGTNPEHIAVLRKVIDEKAYSVKG +>436308.Nmar_1268 +MTEKEPFLDALQNRVLLFDGAMGTEIQKFNPKPEDFPNNQDGFNDGLVVTRPDWIKQIHRHYLDAGADCIETNSFGSNKIKLDEYGFGDQTIEFNKKIAQLASEVCQEYSDRPRYVIGSMGPSGFLPSSNDPDLGQKPLDEIKEAFELQAEGLILGGVDALLIETSQDILEVKLVIEACHQAMEKTGKKIPIIANTTLDQYGKMLLGTNIQAAYTTVSDMGIDVFGMNCSTGPIEMTPSVRWLDEQNEHNILVVPNAGMPENEGGQAVYKMTPEKMGDALGDFLNQYKKVRIIGGCCGTNPEHIKVLRKVIDEKANSVEG |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2D.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2D.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,6 @@ +>1001994.MY1_0571 +MDKSGVIVGAISGAAIVAIIFAVILAVPPTAVKADVISDNKSIPSATGAILTDYSKKLSLIEIFEKSEPGVVRINVQRAEQSNGTSGVGSGFVFDKQGHIITNAHVVKNVKKVVVTFLDGRSYNAEIVGSDQYTDIGVIKVNADLSLLQPLPLGDSANLKVGEPIAAIGNPFGLSGSMTSGIISQLGRLLPSGAGYSIPDVIQTDAAINPGNSGGPLLNMRGEIVGINTAIQSTTGEFTGVGFAVPSQTLAKIVPKIIVDGKYIHPWIGIAGRDIDPDLAKVLNLNDAVGFLVITVVDDSPAAKAGIHGSNETVEVDGIKYLIGGDIILSVDGNQVRKIDDILIHLQRAKSVGDEMVLEVLRDGRTTNIIITLDERPNGN +>436308.Nmar_0594 +MDKSGVFVGGAIGAVIVVAIFAVLFVSPPESVKPDIVVSNGHGPSTVGEVTPVYSKDLSLIEIFEKSEPGVVRVNVQREEVSDVGGVGSGFVFDKQGHIITNEHVIDDAKKIIITFLDGRSYNAEIIGTDEFTDLAVVKVNADLALLHPLSIGDSSNLKVGEPIAAIGNPFGLSGSMTSGIVSQLGRLLPSGSGYSIPDVIQTDAAINPGNSGGPLLNMRGEIVGINTAIQSATGEFTGVGFAIPSQTVAKIVPTLIEDGDYKHPWIGISGRDIDPDLAKVLELPDAVGFLVVTVIEDSPASKAGLIGSEKTIDVDGVNYPMGGDIILAVDGIEVRKIDDILIHLQRAKSVGDEMVLEVLRDGRTTDISIILQERPNGN +>886738.Nlim_0162 +MSKSEMLVGAAIGASVVAVIFAIILISPAAITKSEINTSDKSIPSVTQTAPAYSTNLSLIDIFEKSEPGVVRVNVQRTDQSNGTSGLGSGFVFDKKGDIITNAHVVKNAKNIVVTFLDGRSYNADLIGSDEFTDIAVIKVNADLTRLHPLSLGDSSSLKVGESIAAIGNPFGLSGSMTSGIVSQLGRLLPSGSGYSIPDVIQTDAAINPGNSGGPLLNMRGEIVGINTAIQSTTGEFTGVGFAVPSQTIVKIVPSLIQDGTYHHPWIGITGRDIEPDLAKVLKLNDAVGFLIVSVIDDSPAAKAGLHGSNETVQVDGLNYQIGGDIILSVDGKQVRKIDDILVHLQRAKSVGDEMVLEILRDGRTTNITINLEERPNGN |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2E.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2E.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,6 @@ +>1001994.MY1_1525 +MEPSLVTSIGKIQLERPVMLASGILGISLDVFNRLYRSGAGAVVSKSLSTEPWDGYPNPTIFGINGGGWINAVGLSNPGAPNFAKMIEPNKDVPIIISLVGSIPEDFSTMVEQFKNSKVIAYELNLSCPHVAKVGLEVGDDPELVKKIVSTVKNSTNVPVIAKVGLGTTHYLNTVSAAIDSGIDAITAINTIRAIAIDVETQRPILSNKFGGLSGTPIKPIALRCVYEISSKYDIPIIGCGGISTWEDALEFILAGASAIQIGSAIGDNWIHVFNDINKGILQYMKRKGYSKIDEMIGLAKKS +>436308.Nmar_1390 +MEPNLATSIGPIQLDRPVMLASGILGISLDVFSRLYRSGAGAVVTKSLSTEPWEGYPNPTIFSVKGGGWINAVGLSNPGAENFAKMIEPNQDVPIIVSLVGSIPEDFEKMIKQFENCKVTAYELNLSCPHVAKVGLEVGDDPELVKKIVTTVKNSTNVPVIAKVGLGTTHYLNTVGTAIESGIDAITAINTVRSMAIDVETQRPILSNKFGGLSGTPIKPIALRCVYEISSKYDIPIIGCGGISTWEDAVEFFLAGASSVQLGSAIGDNWIDVFNEINTGILQYMEKKNYSKIEEMIGLAKKS +>886738.Nlim_1764 +MEPSLVTSIGKIQLERPVMLASGILGISLDVFNRLYRSGAGAVVTKSLSTEPWDGYPNPTIFSVNGGGWINAVGLSNPGAPNFAKMIESNTTVPIIVSLVGSIAEDFEMMVSQFKNCKVTAYELNLSCPHVAKVGLEVGDDPELVKKIVSTVKNSTAVPVIAKVGLGTTHYLNTVKTAIDSGIDAITAINTVRAMAIDVETQRPILSNKFGGLSGTPIKPIALRCVYEISSKYDIPIIGCGGISTWEDAIEFILGGASAIQLGSAIGDRWLNVFNDINDGIIRYMKRKGYSKLDEMVGLAKKS |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2F.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2F.fa Tue Oct 31 14:17:50 2017 -0400 |
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| @@ -0,0 +1,6 @@ +>1001994.MY1_0238 +MLEISSTPLVIIAILGTVGILLPIISIARKEKGSNSFYAVIAFAALIVSIGYVAYQFVNGNILPSALFSEDVLVDDAFGGFFAIAMLIVAIFTTVGSFNYMRKKNYPAVYYSLILLSTIGMVLVAYSTDLVMLFVAWELMSIPTYVLAGFMKKNPSSNEAALKYFLFGALSSAIIVYGISLSYGLTGSTNIGEVIQGYATLDPSLLPLALLSVGMFIAGFGFKMGLVPFHQWLPDTYEGAPPTITTLLAAGTKKAGFAATIRIVVLGMVVLNLDWTLALGVIAVMTMTIGNIAAIMQKNLARMLAYSSIAHAGYILIGLAVSPYSSLGLQGSLYHILNHAVMKGMAFIAVTGIITTLAVTHIDKLKGLGRRMPITALGLIISLFALAGVPPLAGFWSKLVLFGGALDAGTSIWWAPWLAIAGVLNSALSLAYYGWITRKMYFEGENEKRVSEPKSIIAIMIFSIVFLVGFGIYPDPIIKFVEFAAPTFSLGVMP +>436308.Nmar_0286 +MLEITSTPLILIAILGTVGVILPIISIARKEKGSNSFYAVIAFAALIVSMAYVGYEFINENVAASALFSDDVIVDDAFGGFFAIAMLIVALFTTVGSFNYMRKHNSPAVYYSLILLATIGMILVAYSTDLVMLFVAWELMSIPTYILVGYMKKNPSSNEAALKYFLFGALSSAIIVYGIAISYGLTGSTNIGEVIEGYSTLDPSLLPLALLSVGMFIAGFGFKMGLVPFHQWLPDTYEGAPSPVTALLAAATKKAGFAAAIRIIVLGMMALNLDWTLALGIIAVMTMTIGNVAAIMQKNLSRMLAYSSIAHAGYILIGLAVAPYSSLGLQGSLYQIFNHAVMKGAAFIAIAGIVTTLAVTHIDKLKGLGRRMPITALGMVISLFALAGVPPLSGFWSKLMLFGSALDASTALWWAPWLAIAGVLNSALSLAYYGWITRKMYFEGETEKRVSEPKSIVAVMIFSIIFLVGFGVYPEPLLKFVEFATPVVSLGLMP +>886738.Nlim_1181 +MLEITSTPLVIIAILGTVGVLLPIISIARKEKGSNSFYAIIAFAALIVSIGYVAYQFINDNVLPSALFSEDVLVDDAFGGFFAIAMLIVAIFTTIGSFNYMRKKNYPAVYYSLILLSTIGMVLVAYSTDLVMLFVAWELMSIPTYVLVGFMKKNPSSNEAALKYFLFGALSSAIIVYGISLSYGLTGSTNIGEVIQGYATLDASLLPLALLSVGMFIAGFGFKMGLVPFHQWLPDTYEGAPPTITTLLAAGTKKAGFAATIRIVVLGMVVLNLDWTLALGVIAVMTMTIGNIAAIMQKNLARMLAYSSIAHAGYILIGLAVSPYSSLGLQGSLYQILNHAVMKGMAFIAVTGIVTTLAVTHIDKLKGLGRRMPITAFGLVISLFALAGVPPLAGFWSKLMLFGGALDAGSTIWWAPWLAIAGVLNSALSLAYYGWITRKMYFEGETEKRVREPKSIIAIMVFSIIFLVGFGVYPDPIIKFVEFAAPTFSLGIMP |
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| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2G.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2G.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1852 +MISLNRFVIILIVGIFVSGILTISFISNSYVDANSTKKINFTKTIISSQDPGQGHENHQLSLILSPNEGTLYDGSMTFTSNEPVDVVVLHEITGNDVKGQPTWTIDGKTIYAMSLIDLKSKSDSFEFTGAALALHSSNSKEFTATVSVDGWIRGQPTEVIMQKIQVEKDPSLMLSRANVEATMPMHEGLYKGNSIFYIITDTSREEYSKKITEKQDWKVQTSTLIEKMPEEILQKIFIFNNGVRGQGIYGHQKEIFSSTPVQESKYSALNSVIEVSWKKGQNAKVLESFEDVIDAEKNGRIEFTKTGVVINSPQIIWPNGQMLVRNDTKITDDLTFSGGQITKINKDEMTVTFVAHRMWGPDGKTIYAIVTDATPSNPSEIMGIPFSPVYDNLITNSSAADLFQFQNGIKGSGSLGYQPGITSVNSDQENYSPIWRIYNVEWHNPKDAKILQTMSDIDSFKAKDLISVSLARPMNSHHIINGPLIDPFQ +>436308.Nmar_1753 +MLRKLIAILIIGIFATSIITASSLSDQFADAGSRKKIHFTQTFTSSQDPGQGHENHQLSLILSPNQGTIYDGSMTFTSSEPVQIVVLHEINSDDAKGQPTWSIDGNTVYGLSLIDLQEKSGSFEFTGAALGLHSPNSKQFTSTVSVDGWIRGQPTEVIMQKIELEKEEPMSLLSRANVPATIPIHEGIYGGEKVLYIITDGSDEEYARELSEKQEWNVELAPVLADVPEDALQKIFVFKNGVKGEGLYGFQNEIFSSTPQQESEYSALSSVIEVTWKTGQKEIVFESANDVIAAEENGRIEFDETGVVLNTPHIVWPGGQMQVRADQEIADDMPYGGGQITEINEEEMTVTFVAHRGWGPDGRTIYYIVTDATPFGPAEMMGVTSSPTSANLIAHSGAVDLFQFKNGIKGTGPLGFQAGIAAASLGDENYSPMWRIYLIEWNDSENAKILETKSDIDSFRADDLITVSITRPTNSDHIVNCPFIDPFQ +>886738.Nlim_1479 +MNRFTIILIVGIFIIGALTVSFVSDNYVNANSTKKINFTKTITSSQDPGQGHENHQLALILSPNQGTLYVGSMTFTSSEPVEIVVLHEINNDDVKGQSTWTIDGKTVYAISLIELKAKSGSLEFTGAALALHSTNSKEFTATVSIDGWIRGQPTEVTMQKIQVQQNPPLELSRANIAASIPMHEGFYDGKSVFYIITDSSQKEYAEMITKKQNWKVEVAPEIKKISENTLQTIFIFKNGVNGDGIYGRQKEVFSSTPSQVQKYSALNSVIEVTWKKGQNASTLESYEDIINAEKNGRIEFSKTGIVINTPQIIWPDGQMLVRNNKEITNNLKFDGGQITEINKDEMTVTFVAHRGWGPDGKTIYYIITDTTPSGPAKIMGIPFSPVSEHLITNSSKSDLYQFKNGIKSSGSLGYQAEIISVMPGDDSYSPIWRVYNIEWNNPENASILETISDITSSKIKDLILVSLARSMNNQYVINGPIIDPFQ |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2H.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2H.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +>436308.Nmar_0483 +MTALATKSENIEKQIISDPSDTIDSEKYKMIAENVTISYDGIQAVKNITMKFKEKSVTALIGPSGCGKTTFLRCLNRMHDMTKNAKVDGKVMIDNIDLYDQSIDPIYHRRKVGMVFQKPNPFPTMSIYDNVTAGLKLNGVKDKRILDEIVEDSLKMAYLWDEVKGDLKKSAIELSGGQQQRLCIARALAIQPEVLLMDEPASALDPIATQKIEETITELKKEYTIIIVTHNMQQAVRVSDYTGFMYLGDLVEFRETKKLFTDPKNELTAKYVQGQFG +>886738.Nlim_0922 +MTAMTTKPTHAETSFTSKSQPTLDSDKYKMIAENITVSYGGVDAVKNVTMKFKEKSVTALIGPSGCGKTTFLRCLNRMHDMTKNAKVTGKVMIDNIDLYAKDIDPIYHRRKVGMVFQKPNPFPTMSVYDNVTAGLRLNGVRDKRILDEIVEDSLKMAYLWDEVKNDLKKSAIELSGGQQQRLCIARALAIQPEVLLMDEPASALDPIATQKIEETIIELKKDYTIIIVTHNMQQAIRVSDYTGFMYLGDLIEFRETKKLFTDPKDDLTAKYVQGHFG |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2I.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2I.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1452 +MELIEKIILTQIYLSGITGKSYKDNLKTKKGFTENIINSKIDELVKNKLITEDKSALTELGRSSLRVVLAGGVFDIIHPGHIHTLNAAKILGDVLVVVVATDNTAIKMKKRQPLHSKEQRQELVNSLSMVDLCLIGQEDDIFKTVNLVKPQIIALGYDQVHQEKFIIEGCKKINLDAKVARLQSPIPESSSSKIQKEYGESIHGI +>436308.Nmar_1298 +MLEQSQRTILSTIYVCQIEGTNPIEKIKRKTAFSDDQINSKIEELIKKQLVNEDKKTLTESGRDSLKVVLAGGVFDIIHPGHIHTLNAAKELGDALVVVVATDNTAVKMKKRRPLHSQEQRQELVNSLSMVDLCLIGQEDDIFKTVNNVRPQIIALGYDQAHQEKFITEGCKKINLDAKVARLQSPIPDSSSSKIEKEYGESIHGI +>886738.Nlim_1033 +MELIKKSILTELYLSGITGKSHIDNLTKKGFTQKLIDLEIDELIKNKLVKEDRAILTELGRSSLRVVLAGGVFDIIHPGHIYTLNAAKSLGDVLIVVVATDNTALKMKKRQPLHSKEQRQELVNSLIMVDLCLIGQEDDIFKTVNLVKPQIIALGYDQVHQEKFIIDGCKKIQLDAKVARLQSPIPESSSSKIQKEYGESIHGI |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2J.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2J.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1646 +MSCSGEIVDEEKLIQIKPGILQQLKKAKYGVADHSTVELCHWTKKSFKHEGSCYKHKFYGISTHRCMEFSPAGMHCENRCVYCWRPMEFYDSLKMEPEKVSEPKEILTKLMEERKKLIMGYYGDSRNDKQRLDESLLPSHYAISLSGEPTMYPKLPELIKYLKSLEATKSIFLVTNGQEPDMIQRLQDKDALPTQLYLSTNAADYDSFLKINRPKYDDSWQRWNRTLEMLKHLDTRTVLRITLIRNYNDQKEMIPAFAAMLKQASPHFIEIKSYMHIGRSTNRLEHSNMLEMEEVRRFSEEVAKHSEIFSIMDESLVSRIVILQNNQRSINRWISAYSNTN +>436308.Nmar_1529 +MSCSGEVVEEEQLIQIKPAISEQLKKAKYGVSDHSTVELCHWTKKSFKHEGSCYKHKFYGISTHRCMEFSPAGMHCENRCVYCWRPMEFYDSLEMKPEQVAEPEEILTKLMAERKKLINGYYGDSRNDKQRLDESLLPSHYAISLSGEPTMYPKLPELIKYLNSLEATKSIFLVTNGQEPDMIQKLQDEDALPTQLYLSTNAADYESFLKINKPKYDDSWERWNRTLGMLKHLNTRTVLRITLIRNYNDQKSMIPAFAKMFKEASPHFIEIKSYMHIGRSTNRLEHSNMLEMEEVKRFSEQIAKQSQIFSVMDESFVSRISILQNNERFIDRWIPAYVNTN +>886738.Nlim_1932 +MSCSGEIVDEERLIQIKPGISQQLKKAKYGVADHSTVELCHWTKKSFKHEGSCYKHKFYGISTHRCMEFSPAGMHCENRCVYCWRPMEFYDSLKMDPEKVAEPKEILTKLMAERKKLINGYYGDSRNDKQRLDESLLPSHYAISLSGEPTMYPKLPELIKYLKSLEETKSIFLVTNGQEPDMIQRLQDEDALPTQLYLSTNAADYESFLKINKPKYDDSWQRWNRTLEMLKKLDTRTVLRITLIRNYNDQEEMIPAFAAMLKQASPHFIEIKSYMHIGRSTNRLEHSNMLEMEEVRKFSESVAEHSQIFSVMDESLVSRIVILQNNQRTIDRWIPAYANTN |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2K.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2K.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +>436308.Nmar_0061 +MPNFDKTWARQETQSVTGKLREAVKPQGALKPRIQTAVNKLQVQISKMDSMLGKLHERDAQLFQRVVTAMQQHDTSTSRVLSNELAEIRKVTKMLGNARMSLEQVQLRLTTIHDLGDAMVAIGPAMSTMKGLKSSLGRFMPEADSELNTMTQTLNGLMMDSLAGDSFNMESDVSSEETEKILQEASAVAEQQIGDKFPSVPSSTGLSSGTSTSTFE +>886738.Nlim_1611 +MPNFDKTWARQETPGVTEKLRETIKPQGALKPRIQTAVNKLQVQISKMDSMLGKLHERDAQLFQRVVTAMQQHDTSTSRVLSNELAEIRKVTKMLGNARMSLEQVQLRLTTIHDLGDAMVAIGPAMSTMKGLKSSLGRFMPEADSELNSMTQTLNGLMMDSLAGDSFSMETGASSEETERILQEASAVAEQQIGDKFPSVPTSTGLSQSSQSTY |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2M.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2M.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_0188 +MLSTGMWVEKYRPSKLSEIVNQKEIIGSLEALIKDPTDMPHLMFSGSAGVGKTTTALCISRQILGEYAKDYTLELNASDERGIGMVREKVKKFSRFAGMVDVPFKIIILDEADEMTSDAQTALRRIIEDTAKYCRFILIANNISKIIDPIQSRCATFKFTSIPEEDVINHLENIAKKEKVKSDKKGLKAIYDYSEGDLRHAINLMQATASIGEISEENVKSSAGLTKTSDVDIVLKMALSGKIVDAREKMIELTKVYGMSESDFLKYLNSAVFKIKHDNISDILEVIAKYDYRILVGANPEIQLTAMLAELGKLEK +>436308.Nmar_0240 +MAATGMWVEKYRPMKLSEVVNQTEIIGSLEALIKDPTDMPHLLFSGSAGVGKTTTALCISRQILGDYAKDYTLELNASDERGIGMVREKVKKFSRYAGMADVPFKIIILDEADEMTSDAQTALRRIIEDTAKICRFILIANNISKIIDPIQSRCATFKFTAVPEEDVIKRLEEIAKKEKVKADKKGLKAIYDYSEGDLRHAINLMQATASLGSISEDNVKASAGLTKTTDVDEVLKIALSGKVPEAREKMIELIKVYGMSESDFLKYLNSAVFKSKHDKLSDILEIIAKYDYRILVGSNSEIQLSAMLAELAKVEN +>886738.Nlim_1226 +MLSTGMWVEKYRPTKLSEIVNQTEIIGSLEALIKDPTDMPHLMFSGSAGVGKTTTALCIARQILGEYAKDYTLELNASDERGIGMVREKVKKFSRFAGMAEVPFKIIILDEADEMTADAQTALRRIIEDTAKYCRFILIANNISKIIDPIQSRCATFKFTSIPQEDVINHLESISKKEKIKSDKKGLKAIYDYSEGDLRHAINLLQATASLGEVTEENVKASAGLTKTSDVDEVLKMALAGKVLEAREKMIELIKVYGMSESDFLKYINSAVFKTKHEKLSDILQVIAKYDFRILSGANSEIQLSALLAELSTLK |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2N.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2N.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_0435 +MNKVNLNIKQRKIISDKIFKIGVTTAGAYVLIVVVLIAFQLVSESYPVWEEEGLSFITKTDWNAVEGRESFGALPYILGTLTTSAIAMMIGVPLSIGIAMFISDAPPKIGAPLGFLVELLAAVPSVIYGLWGLYVFRIYFRDWFETPLHDAFGDNIWLFSGNPYGLDILTASVILAIMIIPTVSAVSREIMKAVPQQQKEAAYMLGATKWEMFKLAIFPYSKTGLIGASILGLGRAVGETMAVTMLIGNATGLGAIPSSLFGPSQTMSSIIANEFVEASPASIHMPALIGIGLILLLIAIVINVVAHLLVTRMLKIKEGAINN +>436308.Nmar_0481 +MGRPKLNPPKVGRRPISDKIFKVGATVAGVYVLVVIVLLAFQLISESAPIWDEYGLSFIVKSEWNAIDDRQDFGVLPYIFGTLVTSALAMVIGVPLSIGIAMFISDAPSKIGGPLGFLVELLAAVPSVIYGLWGLFVFRVYFVDWVEKPLHNTFGDSIWLFSGTPFGLDILTASVILAIMIIPTVSAVSREVMKAVPQQQKEAAYMLGATKWEMFKLAVFPYSKTGLIGASILGLGRAVGETMAVTMLIGNATGPNAFADSLFDPSQTMSSIIANEFNEASLGTLHLPALIGVAVVLLLIAIAINVVAHILVTRMLKVKEGAINN +>886738.Nlim_0924 +MISDKVFKIGATVAGTYVLVVVVLIAFQLISESYPIWEKEGLSFITSTDWNAVEGRESFGALPYIIGTLTTSAIAMAIGVPLSIGIAMFISDAPAKIGGPLGFLVELLAAVPSVIYGLWGLFVFRIYFRDWIETPLHNAFGDNIWLFSGNPYGLDIITASVILAIMIIPTVSAVSREIMKAVPQQQKEAAYMLGATKWEMFKLAVFPYSKTGLIGASILGLGRAVGETMAVTMLIGNATGIGAIPSSLFGPSQTMSSIIANEFVEASPASVHMPALIGIGLILLLIAIVINVIAHLLVTKMLKIKEGAINN |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2P.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2P.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +>1001994.MY1_1290 +MTPSELNEEKLVEIPAEHTFSELYDDVKYDPDIRPGRELQERDSLHEVLLKRRLRQKLVELNPGNPDIVYDIAVQKIELISEPTLIETNRAFHQMLLSGIKVAYQEDNQTKYSVMKLIDFDNPEKNDFIAVRQFLLVQHEERRLDHVIFVNGIPLIILEYKSMADKNATIVDAFHQLGKTKYQRDIPIIFRYNAFLVISDRLNAKYGTINAPFERFSDWNDLTQPDKKVANRLEILQKLLLNKTTILDVIKNFIEYESDGKNLIKKICQQHQYHAVNTIVKKTSDVYSQQGENRIGVVWHTTGSGKSLTMIYYVNSLSQIEKFENPTFIIITDRRDLDEQLNHFFRIAGFPYPKPETAILEADSILDLREKLQVPSGKIIFTTIQKFQTTEEEREGKVKYPKISDRRNIIIIADEAHRSQYKKMAQNLQTALPNALRIGFTGTPIELEDRSTTQVFGDIISSYKIPEAVRDGATVQISCETHPVTLLLLNKFIGKDFEEITQGLDEENVTTLARRGAEFTKLVEDPDRIKTIANDIVSHFNKKQKIFKGKAMIATSTKLAAARFADYISSLKVAPECTCIVSGATSQKPESTPEKRTREAIIQKHYKDKLTIENILTRFKDENDPLSLLIVCDMYLTGFDAPLIHTMYIDKPLRDHNLIQAISRVNRVWKNKPGGAIIDYIGIADDLDRAFSAYAQDDVKGAMIPTAEIIEIMKKKHSDLINFFDPKISNRQGLDESQELQLIYDAIDEIVYDDIVKREFIKIVTELTKAYAVCTPHPSCLDVEDDLRFFQKLRKILLKATSNVPVDLTEMESAISDLVEQGIGADQVVKGFKISFDPKKQDISKEYLNDIKKLKQKNLKAELAYKLLDDAIQAKFKRNLVKRKSFQDRIEEALSKYHARFWDNDDTIQKLEEVGKEITNESSREQELGLNDEEIAFYDVVSLGKDYVKSDAVIKQISLDLTKYLKGNIRIDWINQENIKAEIRMGVRKILLRADFPTDKIEEIVPKIMDQAETNYG +>436308.Nmar_0608 +MNFRIEDNEEGRQVELPALELITALGYTYIPNYELNIPKERPDHRQVLLYPRLRAAIKRLNDFDDDGIEQAIAQIHEDNFPIGMPMIDANEKIRIKLTGRAGENAIAQPITIKQYGKKGIEYPTVKFFDFDPKKIGTKEDKNEYLVTNQFKHLGNRTEIECDIVIFVNGIPLVLIECKKPTTIDLMKTVWKENLEKYQRDGSHSLGHEKLFFFNHVIMATSAIQARYGTLKALPNKYAKWTSLTNITTKELEKLVGRKPTPQDIMLAGMIKKETLLDMLKNFVLYEIEEHKKIKKVAKHQQYRVVTKSVDRISHHKKVEDKGGVIWHTQGSGKSLSMVWFATQLYYKFSRPTIMVITDRRQLNKQIFDTFRNCGFPEPEKPRNRSQLAKTLQYSKGKTIMVNLQKFDKPEKFVETKEKIYVLVDEAHRSQYKWTAGYMRKAMPNAVFFAFTGTPLDRENKNTYRRFGPLIDKYSFTESKEDGATVKVEHMGLLPEIEIEGGNSLNNIFDNLFGHLPKAQQAEIRRKYATKKKIASSPARIRKICEKIVDHYTKKILPNGYKAMIVAPTRAAAVTYKRELEDLTKLPARIIMDSKKDEVGPDEFSWADYYLPQNEALKKAEEFTNPDDPTKFLIVVDMLLVGYDAPIVQVMYLDRPLREHALLQAIARVNRIYDEHKDRGFIIDFWGVTRDLQNALKMFEEQDVQGALDNVDDDLLELDVRHKDFMEKIQGIDSKDHNEIAKRFEDEDEQEEFEYAFKRFAKALEAVLPDKEAVPYEKDLKKGYEIRGKIRAWFYGDRADLSEYGKKVQKIIDKHIRAIGISEISGSKEITYDNFLGFIAKFKGDNRAKAALIKKRATLVIREMSPDNPAFYQKLKERLEKLIQDEKERRVDDAQYFEGIRDIFEEALSGPEKLQKQTGIKDRFQLAIYMLLEEKHSDLKQNKKYSEEIFKKVKKAASVKDWRDKEPQENEIELAVIDTLDKKIFDEKTRDKLASEVYKMAVNNNEW |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2Q.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2Q.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1750 +MDRKILGISGGIAVIIAIVAVMLLTPNLESTPIQKHNEKIGLVINAPHSAISLQDLNQIYAEASSTGIGRSNVYMFWNIVEPVRGEYDWKQSDVLMSFNKNNNLKVTLFFSVINGETLGPFPNWIGKPSLNAIGEDRLVNVLDAILSRYDIIDTVVIAGETESQFRYHEQNIPVYKELFNGVYAKLKEKHPDVQIGNGFALHNVLNKNLEHIVSDLAIGDFVAFSYFPVDTLNDIVKTPEEAKADLQKTFEIIPDKKIGLFEVSWSTSDFVGGNETSQQIFLEKSFEFYTENESKIEFFTWYRQYDRPDGTCVIDKPEIANQTLTVGGGSGLGSSEYIMERLSHYICNSGLLDVDGTPKSSWNEFKNQIELIN +>436308.Nmar_1626 +MDKKILGVGIGVAVVIAIIAGVLSIPSDSNPEVTPVKTNEKIGLVINSPNQSVTLQELDEIYSTASESGIGRSNVYLFWNLIEPEHREYNWQYSDALMSFNQKNDLKVTLYFSIINGETLGPFPDWIGKPPIQSLNEDRVVSVLDAILSRYHIVDTVILAGETESQFRYYEQNIPPYKELFVGVYDKIKEKHPDVKIGNAFALHQVLNKDLQNIVTDLDVGDFVAFSYSPVDTVGDMVKTPQQAKEDLEQIIDLAGDRNAAIFEISWSTSDFVGGSEESQTEFLEKSFEFYAENESELEFFTWYRQNDKPEGTCAFEVQEVGEDKLTVGGSGFGSSEHVIERLDHYVCNAGLFDENGNPKSGWNEFKNQIQMLN +>886738.Nlim_1388 +MDKKILSIGIGIAIVIALVLVVIGFQSAEIITNQKQDEKIGLVINTPNPSISLKELHKIYADASSTGIGRSNVYIFWNVVEPVKGEFDWTQSDVLMSYNKNNDLKVTLYFSVINGETLGPFPNWIGKPSLNAIGEDRVVSVLDAILSRYDIIDTVVIAGETESQFRYYEQNIPVYKELFTGVYDKIKEKHPTVKIGNAFALHNVLNKNLEYIVTDLSLGDFVAFSYSPVDTLNEIVKTPQEAKEDLQKIFEIVPDKKIGLFEISWSTSDFVGGNSTSQQEFLEKSFEFYKENKSKIEFFTWYRQYDKPDGTCVIEKPEIGNKTLSVGGGSGLGSSEYVIERLSHYVCSVGLLDADGTPKPSWNEFKNQIELINQ |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2R.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2R.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +>1001994.MY1_0222 +MWSEKYRPQNISDMIGNEESRSSIIEWFTKWKKGTKPLLLVGPPGIGKTTIAYLTAKQFQYDMVGLNASDVRSKSRINEILSPVLGNVSILGLPMIFIDEVDGIHGRGDYGGAEALIEILKEPTIPIILAANSDTSDKMKSIKKVVKTISFKPIPPRLLKIYLENILKKENVTLSPGSIIKVIDRSRGDVRSMINLTQSLVTGFNPQTEKSFESINVEDGINAFFKANSFDEARGVLYSMQIDPRLKIDAFYSSIVTSNLDNQTLAKLLEIISEADILYGKIMKTQNWRLLRYLNEILIRLYLNDERIRYSQYNLSWPLLNRIRWDGKKIKSLSSVMAKTLHLSSSAFVTICLPYILFCIKNKKLSLDLEETFGDVIEKEIELIK +>436308.Nmar_0270 +MWSEKYRPQIISDMVGNEESRAAIMEWFAKWKKGTKPLLLAGPPGIGKTTMAFLVAKQFGYDMIGLNASDVRSKSRINEILTPVLGNVSVLGTPMIFVDEVDGIHGRGDYGGVAALVDILKEPTVPIILAANDDTSDKMKNIKKVVKTISFKKIPPRLLRVYLENILKKESAKLSPGSLIKVIDKSRGDIRSMINLTQSMVTGFNPQTETTFENIDVEDGVNAFFKSKSVDEARGVLYSMQIDPREKINAFYSSIVMSSLDPETLAKYLEIISEADMLYGKIVRTQNWRLLRYLNDILIKLYHDDDRVRYAQYNLSWPLLNRIRWDGSKIKSLSSVMAKKLHLSSSAFVTFGLPFVLFCIKNNALELELEETFGDIIEKEIELIQ |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2S.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2S.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +>1001994.MY1_0691 +MSFKSLIDEIENNLHKILEDMSIYDISFTVEPAKPGFGDASSNISFLLAKSLKKSPKEIANLMSEKYRQSQNILVLKVEPHQTGYLNFFADWEKLNQLILSESNLNEFGFIDLGHNSEIVVEHTSVNPNKALHIGHIRNIVLGDTVARILKKSNYKVNVLNYVDDSGLQVADIIVGFKHLGFAQQSPTGKKFDHYCGDDVYVKTTEKYEQDPNFEEIRKNTLKELEDGASETAKFADTITRRVLENQLETCWNLGVYYDCLNFESQIIRSGLWSKIFEKLKEMNLVEFENDGKNAGCWIIRGENNEEDKVIVRSNGTATYIAKDIPYAAWKLGLIEDPFSYKKYEKTQPGNKILWQTTLTATNEPKQNFTGNKVITVIDSRQARLQKIITGLMSKFKSTNDAYVHLGYESVTLSSDTAQTLGLDTDGKQAQMSGRKGLYVDADSVYDLLKNKTIEETKKRHPEMSDSEIEQIAHYVSVGTLRYEMIKQDLDKMITFDLTKSLSLEGDTAPYIQYTHARASRIIEKSARNPSIDVDFSLLNDASELSLIKIIGLFEIYVLDAAKNLSPKVIARYCHNLAVAFNSFYEHVKVLELGDEKLENSRLCLVNSFKITLEKALELLGITAPEKM +>436308.Nmar_0686 +MTFKSILDEIENNLNKILDDLSISDVKFSVEPAKPGFGDVSSNVSFLLAKQLKKSPKEISEMLSEKYSQCVSTLVSKSESHPSGYLNFYADWPKLNQLILSESNLPEFGDVDIGKNSTIVVEHTSVNPNKALHIGHIRNIIIGDTISRILQKANYKVNVLNYVDDSGLQVADIIVGFKHFGYPIEPPQGKKFDHYCGDDVYVKTTEKYEQDSSLEEIRKNVLKELEDGTSETAQFADKITRRVLSNQLETCWNLAVSYDCLNFESQIIRSGLWDGIFEKLKEMNLVEFENDGKNAGCWVIRGEGKEEDKVIVRSNGTATYIAKDIPYAAWKLGLLDDPFHYEKYEKEQPNSRVLWQTILNDGASESQNFSGDKVITVIDSRQARLQKIITSLMGKFKSIPDAYVHLGYESVTLSSDTAKILGLETDGKQAQMSGRKGLYVNADSVYDLLKEKTTEETKKRHPEMDDSEIEKISHSVSVATLRYEMIKQDLDKIIAFDLTKSLSLEGDTAPYIQYTHARASRILEKSGRTPSIDVDFSLLKEQSEIDLVKMIGLFNLQVRDAANNLSPKVISRYCHDLAVTFNSFYEKSKVLDLGDEKLENSRLCLVNSFKITIEKALNLLGISAPDKM |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2T.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2T.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_0879 +MSTEQIEKFQEVVDIPAGVKVTLKKNMMHFEGPLGKTHKNFRNIPVNIEIKEGKVILKSQGYRKRDYSILHTARSVIRNLCEGLVVGYTIKMKIAFAHFPITVKVQDRTVLIENFQGERSSRITKIIGNTKVVPKGEDVILTGEVWNHITQTAANIELRSKVKDKDHRVFLDGVYVYEKKKGIEK +>436308.Nmar_0794 +MSTSQLEKMQDQVEIPEGVTVTQNKNMLLFEGPLGKTHKNFRNIPVKIEIADGKVNLKTIGERKRDYAILHTARSIIRNICEGLVEGYTIKMKVVFAHFPITVKVEGKKILIENFQGERAPRSTHIMGNTKVIPKGEDVLLTGEVWTDITQTAANIELTTKVKNKDHRVFLDGIYVYEKKKGIEK +>886738.Nlim_0395 +MSTEQIEKFQEVVEIPKGVTVTLKKHMLHFQGPLGKTHKNFRNIPVNIEVKDGKVILKSQGYRKRDYSILHTARSIIRNICEGLITGYTIKMKIVFAHFPITVKVQDKTVLIENFQGERSARVTRIIGNTKVVPKGEDVILTGEVWNDITQTAANIELRSKVKDKDHRVFLDGVYSYEKKKGIDK |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2U.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2U.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1727 +MVIEVVRIGQRLVRDDRVTTHVALVARAFGCSKIFMTEVNPEIKDTLEKINNTWGGDFVVEFIDNWKSIVKMKKKDSKIVHLTMYGESINEVDMQLRKEENLLIVVGAEKVPREIYELADYNVGIGNQPHSEISALAIILDRIQKGEQFKNSFPGAKRKIIPTRNGKNVLVRGTRD +>436308.Nmar_1606 +MVIEVVRIGQRLVRDDRVTTHVALVSRAFGAERIFMTEINPEIKDTLGKINDTWGGNFEIEFIDSWKPIVKKKKEEGFKIVHLSMYGEKINDAQEEIRKEENLLIVVGAEKVPREIYELADFNVGVGSQPHSEISALAILLDRIQGGQQFEKEFPNAKRKIIPTKTGKNVQVKETRD +>886738.Nlim_1365 +MVLEVVRIGQRLVRDDRVTTHVALVARAFGCTKIFMTEVNPEIKDTVEKINKTWGGDFVVEFIDNWKSIVKKKKEEYKIVHLTMYGESIDDVDEQLRKEKNLLIVVGAEKVPREIYELADYNISIGNQPHSEISALAITLDRIQKGKQFKNSFSGAKRKIIPTKKGKNVFVSGTRD |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2V.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2V.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1241 +MKIRIFDTTLRDGEQTIGVSLSPDQKLAIAKKLDELGVDAIEAGFPVISAGEFKAVKMIAAAGLSCEIAGLTRTIKNDIDAAVDAGLNYIHTFIATSDIHLQYKLKMTREQALEKAIEAVEYGKSRGLQVEFSAEDATRTDREFLKKVFGDVAKAGADRVNIPDTVGYSTPEYMAVLTKDTVEVTKLPVSVHCHNDFGLAVANSLAGIHAGASCAHVTINGIGERAGNASLEEFSMALKCLPFEKKYETNIKSELIYDTSRFISKTVGIIVQPNKAIVGTNAFGHESGIHTHGVLSNPLTYEPISPELVGRKRWLQVGKHAGIHGMNAMLAEYGVKPTEEQSKQILDKVKTLGDAGKQITDVELLSIASDVLGEKELKRIVQLTGFSVSTGIGTMPYAFVKLNIDGQDHIGTDYGVGPVDAALNAIQKITGKISEIRIKDYGLASISGGSSALCEVTVKVEDAFGNKVSAKSVGEDIVTTSVKAVIDAINRIMLKKMLQEKQVR +>436308.Nmar_1070 +MTNVRIFDTTLRDGEQTLGVSLSPDQKLAIAKKLDELGVDAIEAGFPVISEGELQAVKMITAAGLSSEICGLTRTIKKDIDAAIDAGLNYVHTFIATSDIHLEHKLQMTREQALEKAIEAVEYGKSHGLQVEFSAEDASRTDREFLKKVFSEVAKAGADRVNIPDTVGYSTPEYMAQITKDTIEATNLPVSVHCHNDFGLAVANALAGIHVGAACAHVTINGIGERAGNASLEELSMALKCLPYEQKYETNIKSELIYDVSRFISKTVGIIVQPNKAIVGANAFGHESGIHTHGVLNNPLTYEPISPELVGRKRWLKVGKHAGVHGMNAMLEEYGVKPTEDQAKQILEKVKVLGDQGKQITDVELLSMASEVLGKKDLKRIVQLTGFSVSTGIGTMPYAFVKLNVDGQDHIGTDYGVGPVDAALNAIQKITGKISEIRIKDYGLASISGGSGALCEVTVKVEDPLGNKVSAKSVGEDIVTTSVKAVIDAINRIMLKKMLQEKQVS +>886738.Nlim_0759 +MKVRIFDTTLRDGEQTIGVSLSPDQKLAIAKKLDELGVDAIEAGFPVISSGEFKAVKMIASEGLSCEIAGLTRTIKNDVDAAVNAGLNYIHTFIATSDIHLQYKLKMTREQALEKAIEAVEYGKSRGLQVEFSAEDATRTDREFLKKVFGDVAKAGADRVNIPDTVGYSTPEYMAELTRDTVEATHLPVSVHCHNDFGLAVANSLAGIHAGASCAHVTINGIGERAGNASLEEFSMALKCLPFEQKYETNIKSELIYETSRFISKTVGIIVQPNKAIVGTNAFGHESGIHTHGVLSNPLTYEPISPELVGRKRWLQVGKHAGIHGMNAMLAEYGVKPTEEQSKQILDKVKTLGDAGKQITDVELLSIASDVLGEKELKRIVQLTGFSVSTGIGTMPYAFVKLNIDGQDHIGTDYGVGPVDAALNAIQKITGKISEIRIKDYGLASISGGSSALCEVTVKVEDALGNKVSAKSVGEDIVTTSVKAVIDAINRIMLKKMLQEKQVR |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2W.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2W.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1343 +MQNQKSEWATNESPRIMSYTLANFRQLPQIQKLGEEKQFEMEVVGNVLPFKTNNYVVEQLIDWNNIPDDPMFVLTFPQRGMLIPEHYAKMEAALKKGDKKEIQNTANEIRLQLNPHPAGQMELNVPTLKDGTKLYGMQHKYKETCLFFPSQSQTCHAYCSFCFRWPQFVGMDELKFAMKEGEQLVQYLQEHPEISDVLFTGGDPMIMKARIFSTYINPLLEANLPNLRTIRIGTKALSYWPYKFLTDDDAEEMLDIFKRVVDKGIHLALMGHFNHTVELKTDAVKEAIKKVRATGAQIRTQSPILRHINDDSEMWAEMWKTQVQLGCIPYYMFVVRDTGAQHYFGIPLIEAQRIFRDAYKKVTGLARTVRGPSMSATPGKVQILGIAEYGGEKLMVLRFLQGRNPDWVQIPFLAKYDEKAIWLDDLKPATGDKFFFEDELNEKMKVIKNQDYPES +>436308.Nmar_1772 +MTYQESVWDDSPSLKSYTLSNFRDLPQIQNISEEKQFEMEVVGNVLPFKANNYVVEQLINWNDIPNDPMYVLTFPQRGMLKPEHYAKMENTLKNTSDKKEIANVANEIRLQLNPHPAGQMELNVPTLKDGTKLYGMQHKYKETCLFFPSQSQTCHAYCSFCFRWPQFVGMDEMKFAMQEGEQLVQYVSEHPEISDVLFTGGDPMIMKAKMFSKYVDALIEAKLPNLKTIRIGTKALSYWPYKFLTDSDSQEMLQVFQKITDSGLHLAFMAHFNHLNELSTNAVKSAIKEVRKTGAQIRTQSPLLAHINDDAEMWANMWTKQVQLGCIPYYMFVVRDTGAQHYFGVPLVKAYEIFSQAYSTVSGLGRTVRGPSMSATPGKVQVVGTTQINGEKLLILRFLQGRNPNWIKEPFFAKYDENAIWLDDLKPAFGDKFFFEDELDAIKASKTS +>886738.Nlim_0892 +MQRQDSAWGVKESPRLKSYTLANFRELPQIQKMGAKKQFEMEVVGNVLPFKTNNYVIEQLIDWNNIPNDPMFVLTFPQRGMLIPEHYSKMESALKKGDKKEIQNTANEIRLQLNPHPAGQMELNVPTLKDGTKLYGMQHKYKETCLFFPSQSQTCHAYCSFCFRWPQFVGMDELKFAMREGEQLVQYLREHPEISDVLFTGGDPMIMKAKIFSTYINPLLEANLPNLRTIRIGTKALSYWPYKFLTEDDAEEMLDIFKRVVDKGIHLAVMGHFNHLVELKTDAVKEAIKKIRATGAQIRTQSPLLRHINDDADMWAEMWKVQVQLGCIPYYMFVVRDTGAQHYFGISLIDAQRIFRDAYKKVTGLARTVRGPSMSATPGKVQILGITEVNDEKFMVLRFLQGRNPDWVQIPFLAKYDEKAIWLDDLKPATGDKFFFENELKEMMMTIKNEDYPES |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2X.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2X.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1050 +MKFLIIDNYDSFVYNIAQYLGELGVDCDVIRNDKITLEKIKQNNYDAVIISPGPGTPTDRKYFGICSDVIKDMGSTTPILGVCLGHQGIIHAFGGKVTNAGCVRHGKTSPVDHTNSDLFKDVKNPFRATRYHSLVGDKTIIPDVLEVTAVAADDGEVMAVRHKEYLIEGVQFHPESIMTEDGKKILANFIKQVKDRK +>436308.Nmar_0912 +MKFLIIDNYDSFVYNIAQYLGELGVDCDVIRNDKITLNEIQEKKYDAIIISPGPGTPEDKKYFGVCSEVIKDMGSSTPILGVCLGHQGIIDAFGGKVTNAGCVRHGKTSPVNHEDSKLFKDVKNPFRATRYHSLVGDKTIIPEVLKVTATASDDGEVMAIEHKDYLIQGVQFHPESIMTEDGKKILSNFIQQVKEKQK +>886738.Nlim_0576 +MKFLIIDNYDSFVYNIAQYLGELGVDSDVIRNDKITVEQIKQNKYDAIIISPGPGTPSDRKYFGVCGDVIKDIGPITPILGVCLGHQGIIEAFGGKVTNARCVRHGKTSPVDHTNSELFKDVKNPFRATRYHSLVGDKTIIPDALEITAIAADDGEVMAVRHKKYLIEGVQFHPESIMTEDGKKILANFIKQVKSKK |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2Y.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2Y.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1793 +MMGDRDYRSIIKNAVDSIGRELEIEIDAKDIKTIHLKEVVQCLRRSYYDRIEPKEVERRGFNDLLSGLLRKLQYGSDPKEFSIEDIKLRGHADMIADNSIILFRPTNASLESPLANDLLYLNACMWIYDKTDGVIIYITGDREEIMFSLTRDKKMFEEIIRRVRVLNDLLKEQKTPILEPSSDCMECQYYQRCFITKKNTKQVSLAEMLGLGKD +>436308.Nmar_1701 +MMGDRDFRTTIQNAIKSIGNELEIDIDSKDFETIHLQEVVRCMRRSYYDRVEPLEIERRGFNELLSGLLRKLEYGSNPKDFDINEIKLRGQADMMVDDAILLFRSATEELENPHASDVLYLNACMWIYDKEDGMIVYITGDRKESTFSLTRNKKMFEDTIRRVRVLNNLLKEQKTPILEPSAECTECQYYERCFTKRKNTKQTSLAEMLGLGKQD +>886738.Nlim_1425 +MMGDRDFRSIVKNAVDTIGRELEIQIDAKNIKTIHLKEVVQCLRRSYYDRIDPKEVERRGFNDLLSGLLRKLHYGSDPKEFSIDEIKLRGQADMIADDSIVLFRPSKTVIEAPVANDLLYLNACMWIYDKTDGIIVYITGDREEIMFSLTRDKKMFEEIIRRVRVLNDLLKEQKTPILEPSNDCAECQYYQRCFTTKKNTKQVSLAEMIGLGKD |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/OG_fasta/thaNOG/1CB2Z.fa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/OG_fasta/thaNOG/1CB2Z.fa Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,6 @@ +>1001994.MY1_1440 +MAEKGILAFSGGLDTSVVIKYLQEEYNMDVITVTVDVGQGDDQKKIEAKAKKLGVIKHYNIDARKEFVENFIFPSIKANALYQKKYCLATALARPLIAEKVLEIAKKEKVTSLAHGCSGKGNDQVRFDITLRSGSDLPIIAPIRDKNLDRVTELEFAKKHGIEIDSVAKRFSIDQNLWGRAIEGGVLEDPYNEPPEDAFIWVKTKNLPDKPTYLEIKFEKGIPVSVDGKILEPIKLIEYVNKKAGDAGVGIVDHIEDRVVGIKSREVYETPGALCLIEAHSDLEKMVHTKHENKFKSIIDDEWAYLAYSGLWQDPLKQDLDAFIQASQKPVSGTVKLKLFKGSIRVVGRKSDYSLYNHKIATYGTESTFDQRLAKGFVELWGIQSTEANKLQKKRSTKT +>436308.Nmar_1286 +MTQKGILAFSGGLDTSVVVKYLQDEHDMDVITVTVDVGQGDDNKKIAAKAKKLGVKKHYNIDARKEFVKDYIFPSIKANALYQKKYCLATALARPLIAEKVLEIAKKEKVTSLAHGCSGKGNDQVRFDITLRSGSNLPIIAPIRDKNLDRVTELKFAKKHGIEIDTVAKKFSIDQNLWGRAIEGGVLEDPYNEPPDDAFIWVKTKNLPDKPTYLEIKFEKGIPVGVDGKTMDGQKLIEYINKKAGDAGVGIVDHIEDRVVGIKSREVYETPAATCLIEAHSDLEKMVHTKHENKFKSIIDDEWAYLAYSGLWQDPLKSDLDGFIEASQKPVTGTVKLKLYKGSLRVVGRKSKNSLYSHEIATYGTESTFDQRLAKGFVELWGMQSTEANKLQKKRSTKI +>886738.Nlim_1021 +MTEKGILAFSGGLDTSVVVKYLQEEYDMDVITVTVDVGQGDDQRKIEAKAKKLGVKKHYNIDARKEFVEKFIFPSIKANALYQKKYCLATALARPLIAEKVLEIAKKEKVTSLAHGCSGKGNDQVRFDITLRSGSDLPIIAPIRDKNLDRVTELAFAKKHGIEIDSVAKRFSIDQNLWGRAIEGGVLEDPYSEPPDDAFIWVKTKNLPDKPTYIEIKFEKGIPVAVDGKILEPIKLIEYVNKKAGDAGVGIVDHIEDRVVGIKSREVYETPGALCLIEAHSDLEKMVHTKHENKFKSIIDDEWAYLAYSGLWQDPLKQDLDSFIETSQKPVTGTVKIKLFKGSMRVVGRKSDYSLYSHKIATYGSESTFDQKMAKGFVELWGIQSTEANKLQKKRSTKI |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/eggnog.db |
| b |
| Binary file test-data/cached_locally/eggnog.db has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/eggnog_mapper.loc --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/eggnog_mapper.loc Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,4 @@ +#name value type db +eggnog_4.5 eggNOG_4.5 data ${__HERE__} +ENOG411CB2I ENOG411CB2I hmmer ${__HERE__}/hmmdb_levels/ENOG411CB2I/ENOG411CB2I +dmnd diamond diamond ${__HERE__} |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/eggnog_proteins.dmnd |
| b |
| Binary file test-data/cached_locally/eggnog_proteins.dmnd has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I Tue Oct 31 14:17:50 2017 -0400 |
| [ |
| b'@@ -0,0 +1,637 @@\n+HMMER3/f [3.1b1 | May 2013]\n+NAME ENOG411CB2I\n+LENG 205\n+ALPH amino\n+RF no\n+MM no\n+CONS yes\n+CS no\n+MAP yes\n+DATE Thu Apr 16 06:29:18 2015\n+NSEQ 3\n+EFFN 0.454102\n+CKSUM 2514733105\n+STATS LOCAL MSV -10.6020 0.70508\n+STATS LOCAL VITERBI -11.4006 0.70508\n+STATS LOCAL FORWARD -4.9608 0.70508\n+HMM A C D E F G H I K L M N P Q R S T V W Y \n+ m->m m->i m->d i->m i->i d->m d->d\n+ COMPO 2.60488 4.26537 2.86806 2.68812 3.48541 2.84597 3.68190 2.58658 2.57105 2.36046 3.71753 3.12796 3.51194 3.07828 3.00549 2.67857 2.91482 2.52396 5.16454 3.68907\n+ 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24578 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n+ 0.17176 1.91497 4.55917 0.35031 1.21898 0.00000 *\n+ 1 3.06761 4.52439 4.31327 3.78099 3.05250 4.16350 4.46561 2.17607 3.57234 1.30879 1.91901 4.09154 4.45690 3.86045 3.77957 3.51234 3.30962 2.23580 5.01687 3.83610 2 l - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 2 2.92273 5.02492 2.47434 1.07719 4.36685 3.25185 3.83632 3.81369 2.71243 3.43683 4.41304 2.91439 3.85493 3.05312 3.11711 2.90913 3.22689 3.50145 5.54519 4.26810 3 e - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 3 2.78351 4.58087 3.32911 2.88754 3.40933 3.59103 3.84122 2.81006 2.61259 1.66760 3.45029 3.30455 4.01739 2.39416 2.89621 2.95209 3.03282 2.70991 4.99124 3.67436 4 l - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 4 2.53418 4.23705 3.59368 3.16853 3.49025 3.42404 4.06074 1.74993 3.06664 2.43412 3.49971 3.45907 3.96332 3.42386 3.35145 2.21772 2.86823 2.25074 5.06222 3.78462 5 i - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 5 2.78589 5.09914 2.65704 2.00312 4.42838 3.36184 3.58271 3.84850 1.89046 3.35615 4.18804 2.85104 3.82604 2.22691 2.52714 2.75121 3.01078 3.49213 5.49453 4.17260 6 k - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 6 2.93327 5.02405 3.29627 2.69847 4.43219 3.55593 3.56756 3.79912 1.41937 3.28272 4.16078 3.11215 3.94769 2.71245 1.76026 2.94298 3.11879 3.48852 5.35872 4.16856 7 k - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 7 2.42315 4.21787 3.44026 2.97006 3.62502 3.28653 3.93296 2.25259 2.89478 2.62127 3.57447 3.29089 3.83488 3.23909 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 198 3.19664 4.70006 3.78606 3.50925 2.29569 3.78896 3.60349 3.21093 3.36780 2.67393 3.88982 3.68029 4.26389 3.68239 3.55861 3.33670 3.48329 3.07987 3.93791 1.02720 199 y - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 199 2.62209 4.40041 3.28850 3.18371 4.32546 0.78630 4.30564 3.91689 3.36007 3.57539 4.55128 3.45295 3.79040 3.68714 3.59951 2.79308 3.10058 3.45214 5.42949 4.42634 200 g - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 200 2.92273 5.02492 2.47434 1.07719 4.36685 3.25185 3.83632 3.81369 2.71243 3.43683 4.41304 2.91439 3.85493 3.05312 3.11711 2.90913 3.22689 3.50145 5.54519 4.26810 201 e - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 201 2.29842 4.21804 3.17637 2.99106 4.04109 2.94862 4.10162 3.55914 3.06240 3.28234 4.21181 3.22118 3.68461 3.41464 3.34915 1.14610 2.77598 3.10206 5.41656 4.12456 202 s - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 202 3.00341 4.43279 4.28393 3.89883 3.35077 4.02713 4.63395 1.12320 3.72623 1.94475 3.29234 4.14920 4.46227 4.07854 3.92692 3.51945 3.30343 1.84653 5.23382 3.96866 203 i - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 203 2.95756 4.78041 3.09252 2.84941 3.26099 3.41845 1.21998 3.65490 2.69349 3.15313 4.19373 3.25996 3.96930 3.21533 2.96107 3.02872 3.25993 3.39076 4.72643 3.21297 204 h - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 204 2.62209 4.40041 3.28850 3.18371 4.32546 0.78630 4.30564 3.91689 3.36007 3.57539 4.55128 3.45295 3.79040 3.68714 3.59951 2.79308 3.10058 3.45214 5.42949 4.42634 205 g - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n+ 205 3.00341 4.43279 4.28393 3.89883 3.35077 4.02713 4.63395 1.12320 3.72623 1.94475 3.29234 4.14920 4.46227 4.07854 3.92692 3.51945 3.30343 1.84653 5.23382 3.96866 206 i - - -\n+ 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n+ 0.02203 3.82629 * 0.61958 0.77255 0.00000 *\n+//\n' |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3f |
| b |
| Binary file test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3f has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3i |
| b |
| Binary file test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3i has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3m |
| b |
| Binary file test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3m has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3p |
| b |
| Binary file test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I.h3p has changed |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/make_comp_file.sh --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/make_comp_file.sh Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,24 @@ +#!/bin/bash + +base_path=$1 + +emapper.py \ + -i $base_path/test-data/nlim_fragment.fasta \ + --output HMM_nlim \ + --output_dir $base_path/test-data \ + --override \ + --database $base_path/test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I \ + --data_dir $base_path/test-data/cached_locally \ + --no_refine\ + --no_annot \ + --no_file_comments + +emapper.py \ + -i $base_path/test-data/nlim_fragment.fasta \ + --output DIA_nlim \ + --output_dir $base_path/test-data \ + --override \ + -m diamond \ + --data_dir $base_path/test-data/cached_locally \ + --no_file_comments \ + --no_annot |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/nlim_1033.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/nlim_1033.fasta Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,7 @@ +>Nlim_1033886738.Nlim_1033Cytidyltransferase-like protein +MELIKKSILTELYLSGITGKSHIDNLTKKGFTQKLIDLE +IDELIKNKLVKEDRAILTELGRSSLRVVLAGGVFDIIHP +GHIYTLNAAKSLGDVLIVVVATDNTALKMKKRQPLHSKE +QRQELVNSLIMVDLCLIGQEDDIFKTVNLVKPQIIALGY +DQVHQEKFIIDGCKKIQLDAKVARLQSPIPESSSSKIQK +EYGESIHGI |
| b |
| diff -r 000000000000 -r f4e5279b5d10 test-data/nlim_fragment.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/nlim_fragment.fasta Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,2 @@ +>Nlim_1033886738.Nlim_1033Cytidyltransferase-like protein +MELIKKSILTELYLSGITGKSHIDNLTKKGFTQKLIDLE |
| b |
| diff -r 000000000000 -r f4e5279b5d10 tool-data/eggnog_mapper.loc.sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool-data/eggnog_mapper.loc.sample Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,30 @@ +#This is a sample file distributed with Galaxy that enables tools +#to use a directory of eggnog_mapper data files. +# +# eggnog-mapper requires the following files to be installed in the data directory: +# https://github.com/jhcepas/eggnog-mapper/blob/master/data/og2level.tsv.gz +# http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/eggnog.db.gz +# http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/OG_fasta.tar.gz +# In addition individual HMM DBs can be installed from: +# http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/hmmdb_levels/ +# A complete diamond database is available from: +# http://eggnogdb.embl.de/download/eggnog_4.5/eggnog-mapper-data/eggnog_proteins.dmnd.gz +# +# The python script download_eggnog_data.py, +# included with eggnog_mapper, can be used to download the files to the correct directory +# +# The near-equivalence of columns "value" and "db" is needed for the tests to work, +# and for the setting of --data_dir to the parent directory of eggnog.db +# The complicated eggNOG database structure makes passing custom HMM databases somewhat tricky. +# See test-data/cached_locally/eggnog_mapper.loc for how this was done with the included test databases +# In all other cases, when the appropriate HMM database (for example, "thaNOG") was downloaded from eggnogdb.embl.de, +# value and db should be the same (in the example, both should be "thaNOG") +# +# +#name value type db +#eggnog_4.5 eggnog_4.5 data /path/to/directory/that/contains/eggnog.db +#Full eggNOG database NOG hmmer NOG +#Eukaryotes euk hmmer euk +#Bacteria bact hmmer bact +#Archaea arch hmmer arch +#dmnd diamond diamond dmnd |
| b |
| diff -r 000000000000 -r f4e5279b5d10 tool_data_table_conf.xml.sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.sample Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,7 @@ +<tables> + <!-- Locations of all eggnog_mapper data --> + <table name="eggnog_mapper" comment_char="#"> + <columns>name,value,type,db</columns> + <file path="tool-data/eggnog_mapper.loc" /> + </table> +</tables> |
| b |
| diff -r 000000000000 -r f4e5279b5d10 tool_data_table_conf.xml.test --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.test Tue Oct 31 14:17:50 2017 -0400 |
| b |
| @@ -0,0 +1,7 @@ +<tables> + <!-- Locations of all eggnog_mapper data --> + <table name="eggnog_mapper" comment_char="#"> + <columns>name,value,type,db</columns> + <file path="${__HERE__}/test-data/cached_locally/eggnog_mapper.loc" /> + </table> +</tables> |