| Previous changeset 0:fae6527990af (2015-05-21) Next changeset 2:f29e21388219 (2015-12-17) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsearch commit 95732e013ec4dfe5dae0b9ed81e9d7710cbaed9d |
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modified:
clustering.xml dereplication.xml sorting.xml tool_dependencies.xml vsearch_macros.xml |
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added:
test-data/clustering_blast6out_result2.tab test-data/clustering_centroids_result2.fasta test-data/clustering_centroids_result4.fasta test-data/clustering_notmatched_result2.fasta test-data/clustering_uc_result3.uc test-data/dereplication_result2.fasta test-data/dereplication_uc_result3.fasta test-data/sorting_result3.fasta test-data/sorting_result4.fasta test-data/sorting_result5.fasta |
| b |
| diff -r fae6527990af -r 8c4e2933a17a clustering.xml --- a/clustering.xml Thu May 21 03:58:09 2015 -0400 +++ b/clustering.xml Wed Aug 26 13:34:22 2015 -0400 |
| [ |
| b'@@ -1,4 +1,4 @@\n-<tool id="vsearch_clustering" name="VSearch clustering" version="@VERSION@.0">\n+<tool id="vsearch_clustering" name="VSearch clustering" version="@VERSION@.1">\n <description></description>\n <macros>\n <import>vsearch_macros.xml</import>\n@@ -10,8 +10,12 @@\n <![CDATA[\n vsearch\n @GENERAL@\n- --cluster_fast "$infile"\n- ##--cluster_smallmem FILENAME cluster sequences using a small amount of memory\n+\t\n+\t#if $clustering_mode.clustering_mode_select == \'cluster_fast\':\n+ --cluster_fast "$infile"\n+\t#else if $clustering_mode.clustering_mode_select == \'cluster_smallmem\':\n+ --cluster_smallmem "$infile"\n+ #end if\n ##--clusters STRING output each cluster to a separate FASTA file\n \n #if $maxrejects:\n@@ -23,7 +27,7 @@\n \n $cons_truncate\n --id $id\n- ##--iddef $iddef\n+ --iddef $iddef\n \n #if \'--msaout\' in str($outputs):\n --msaout $msaout\n@@ -52,24 +56,33 @@\n #if $qmask != \'no\':\n --qmask $qmask\n #end if\n- #if $sizein:\n- --sizein $sizein\n- #end if\n- #if $sizeout:\n- --sizeout $sizeout\n- #end if\n+ $sizein\n+ $sizeout\n --strand $strand\n- --usersort $usersort\n+\t$usersort\n+\t#if $uc:\n+ --uc "$uc_outfile"\n+\t#end if\n \n ]]>\n </command>\n <inputs>\n- <param name="infile" type="data" format="fasta" label="Select your FASTA file" help="(--cluster_fast)" />\n+ <param name="infile" type="data" format="fasta" label="Select your input FASTA file" help="" />\n+ <conditional name="clustering_mode">\n+ <param name="clustering_mode_select" type="select" label="Choose sorting method to use before clustering" help="">\n+ <option value="cluster_fast" default="True">Cluster sequences after sorting by length (--cluster-fast)</option>\n+ <option value="cluster_smallmem">Cluster already sorted sequences (--cluster-smallmem)</option>\n+ </param>\n+ <when value="cluster_fast">\n+ </when>\n+ <when value="cluster_smallmem">\n+ </when>\n+ </conditional>\n+ <param name="usersort" type="boolean" truevalue="--usersort" falsevalue="" checked="False" \n+ label="Indicate that input sequences are not presorted by length" help="(--usersort)"/>\n <expand macro="id_and_iddef" />\n <param name="cons_truncate" type="boolean" truevalue="--cons_truncate" falsevalue="" checked="False" \n label="Do not ignore terminal gaps in MSA for consensus" help="(--cons_truncate)"/>\n- <param name="usersort" type="boolean" truevalue="--usersort" falsevalue="" checked="False" \n- label="Indicate that input sequences are presorted" help="(--usersort)"/>\n <expand macro="qmask" />\n <expand macro="sizein" />\n <expand macro="sizeout" />\n@@ -83,6 +96,7 @@\n <option value="--notmatched">Write non-matching query sequences to separate file</option>\n <option value="--matched">Write matching query sequences to separate file</option>\n </expand>\n+ <expand macro="uclust_like_output" />\n \n </inputs>\n <outputs>\n@@ -110,6 +124,9 @@\n <data name="fastapairs" format="fasta" label="${tool.name} on ${on_string}: Query/Target sequences">\n <filter>\'--fastapairs\' in outputs</filter>\n </data>\n+ <data name="uc_outfile" format="tabular" label="${tool.name} on ${on_string}: UCLUST like output">\n+ <filter>uc is True</filter>\n+ </data>\n </outputs>\n <tests>\n <test>\n@@ -117,7 +134,7 @@\n <param name="id" value="0.99"/>\n <param name="maxaccepts" value="1"/>\n <param name="maxrejects" value="2"/>\n- <param name="sizeout" value="--sizeout"/>\n+ <param name="sizeout" value=""/>\n <param name="outputs'..b't_result2.tab" ftype="tabular" />\n+ <output name="notmatched" file="clustering_notmatched_result2.fasta" ftype="fasta" />\n+ </test>\n+\t<test>\n+ <param name="infile" value="BioMarKs5k.fsa.bz2" ftype="fasta" />\n+ <param name="clustering_mode_select" value="cluster_smallmem"/>\n+ <param name="usersort" value="--usersort"/>\n+ <param name="id" value="0.99"/>\n+ <param name="maxaccepts" value="1"/>\n+ <param name="maxrejects" value="2"/>\n+ <param name="sizeout" value="--sizeout"/>\n+ <param name="outputs" value="--centroids" />\n+ <param name="uc" value="--uc"/>\n+ <output name="centroids" file="clustering_centroids_result2.fasta" ftype="fasta" />\n+ <output name="uc_outfile" file="clustering_uc_result3.uc" ftype="tabular" />\n+ </test>\n+\t<test>\n+ <param name="infile" value="BioMarKs5k.fsa.bz2" ftype="fasta" />\n+ <param name="clustering_mode_select" value="cluster_smallmem"/>\n+ <param name="usersort" value="--usersort"/>\n+ <param name="id" value="0.99"/>\n+ <param name="maxaccepts" value="1"/>\n+ <param name="maxrejects" value="2"/>\n+ <param name="sizeout" value="--sizeout"/>\n+ <param name="outputs" value="--centroids" />\n+ <param name="iddef" value="0"/>\n+ <output name="centroids" file="clustering_centroids_result4.fasta" ftype="fasta" />\n+ </test>\n+\t<test>\n+ <param name="infile" value="BioMarKs5k.fsa.bz2" ftype="fasta" />\n+ <param name="clustering_mode_select" value="cluster_fast"/>\n+ <param name="usersort" value="--usersort"/>\n+ <param name="id" value="0.99"/>\n+ <param name="maxaccepts" value="1"/>\n+ <param name="maxrejects" value="2"/>\n+ <param name="sizeout" value=""/>\n+ <param name="outputs" value="--centroids" />\n+ <param name="qmask" value="none"/>\n+ <output name="centroids" file="clustering_centroids_result1.fasta" ftype="fasta" />\n+ </test>\n </tests>\n <help>\n <![CDATA[\n@@ -139,19 +206,21 @@\n \n Clustering options (most searching options also apply)\n --centroids FILENAME output centroid sequences to FASTA file\n- --cluster_fast FILENAME cluster sequences fast\n- --cluster_smallmem FILENAME cluster sequences using a small amount of memory\n+ --cluster_fast FILENAME cluster sequences after sorting by length\n+ --cluster_size FILENAME cluster sequences after sorting by abundance\n+ --cluster_smallmem FILENAME cluster already sorted sequences (see -usersort)\n --clusters STRING output each cluster to a separate FASTA file\n --consout FILENAME output cluster consensus sequences to FASTA file\n --cons_truncate do not ignore terminal gaps in MSA for consensus\n --id REAL reject if identity lower\n --iddef INT id definition, 0-4=CD-HIT,all,int,MBL,BLAST (2)\n- --msaout FILENAME output multiple seq. alignments to FASTA file \n- --qmask mask seqs with dust, soft or no method (dust)\n- --sizein read abundance annotation from input\n+ --msaout FILENAME output multiple seq. alignments to FASTA file\n+ --qmask seqs with dust, soft or no method (dust)\n+ --sizein propagate abundance annotation from input\n --sizeout write cluster abundances to centroid file\n- --strand cluster using "plus" or "both" strands (plus)\n- --usersort indicate that input sequences are presorted\n+ --strand cluster using plus or both strands (plus)\n+ --uc FILENAME filename for UCLUST-like output\n+ --usersort indicate sequences not presorted by length\n \n \n @EXTERNAL_DOCUMENTATION@\n' |
| b |
| diff -r fae6527990af -r 8c4e2933a17a dereplication.xml --- a/dereplication.xml Thu May 21 03:58:09 2015 -0400 +++ b/dereplication.xml Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -1,4 +1,4 @@ -<tool id="vsearch_dereplication" name="VSearch dereplication" version="@VERSION@.0"> +<tool id="vsearch_dereplication" name="VSearch dereplication" version="@VERSION@.1"> <description></description> <macros> <import>vsearch_macros.xml</import> @@ -18,16 +18,14 @@ --minuniquesize $minuniquesize #end if --output $outfile - #if $sizein: - --sizein $sizein + $sizein + $sizeout + --strand $strand + #if $topn: + --topn $topn #end if - #if $sizeout: - --sizeout $sizeout - #end if - --strand $strand - --topn $topn #if $uc: - --uc $uc + --uc $uc_outfile #end if ]]> </command> @@ -45,7 +43,7 @@ </inputs> <outputs> <data name="outfile" format="fasta" label="${tool.name} on ${on_string}" /> - <data name="uc" format="fasta" label="${tool.name} on ${on_string}: UCLUST like output"> + <data name="uc_outfile" format="fasta" label="${tool.name} on ${on_string}: UCLUST like output"> <filter>uc is True</filter> </data> </outputs> @@ -55,9 +53,28 @@ <param name="strand" value="both" /> <param name="minuniquesize" value="1" /> <param name="maxuniquesize" value="100000" /> + <param name="topn" value="10000" /> + <output name="outfile" file="dereplication_result1.fasta" ftype="fasta" /> + </test> + <test> + <param name="infile" value="AF091148_first_rep.fsa.bz2" ftype="fasta" /> + <param name="strand" value="both" /> + <param name="minuniquesize" value="1" /> + <param name="maxuniquesize" value="100000" /> + <param name="sizeout" value="--sizeout"/> + <param name="topn" value="" /> + <output name="outfile" file="dereplication_result2.fasta" ftype="fasta" /> + </test> + <test> + <param name="infile" value="AF091148_first_rep.fsa.bz2" ftype="fasta" /> + <param name="strand" value="both" /> + <param name="minuniquesize" value="1" /> + <param name="maxuniquesize" value="100000" /> <param name="sizeout" value="--sizeout"/> <param name="topn" value="10000" /> - <output name="outfile" file="dereplication_result1.fasta" ftype="fasta" /> + <param name="uc" value="--uc" /> + <output name="outfile" file="dereplication_result2.fasta" ftype="fasta" /> + <output name="uc_outfile" file="dereplication_uc_result3.fasta" ftype="fasta" /> </test> </tests> <help> |
| b |
| diff -r fae6527990af -r 8c4e2933a17a sorting.xml --- a/sorting.xml Thu May 21 03:58:09 2015 -0400 +++ b/sorting.xml Wed Aug 26 13:34:22 2015 -0400 |
| [ |
| @@ -1,4 +1,4 @@ -<tool id="vsearch_sorting" name="VSearch sorting" version="@VERSION@.0"> +<tool id="vsearch_sorting" name="VSearch sorting" version="@VERSION@.1"> <description></description> <macros> <import>vsearch_macros.xml</import> @@ -22,9 +22,10 @@ #end if #end if --output $outfile - #if $sizeout: - --sizeout $sizeout + #if $relabel: + --relabel "$relabel" #end if + $sizeout #if $topn: --topn $topn #end if @@ -49,6 +50,8 @@ </when> </conditional> <expand macro="topn" /> + <param name="relabel" type="text" value="" + label="Relabel with this prefix string after sorting" help="(--relabel)"/> <param name="sizeout" type="boolean" truevalue="--sizeout" falsevalue="" checked="False" label="Add abundance annotation to output" help="(--sizeout)"/> </inputs> @@ -66,6 +69,24 @@ <param name="infile" value="db.fasta" ftype="fasta" /> <output name="outfile" file="sorting_result2.fasta" ftype="fasta" /> </test> + <test> + <param name="sorting_mode_select" value="sortbylength"/> + <param name="infile" value="db.fasta" ftype="fasta" /> + <param name="relabel" value="TEST" /> + <output name="outfile" file="sorting_result3.fasta" ftype="fasta" /> + </test> + <test> + <param name="sorting_mode_select" value="sortbylength"/> + <param name="infile" value="db.fasta" ftype="fasta" /> + <param name="sizeout" value="--sizeout" /> + <output name="outfile" file="sorting_result4.fasta" ftype="fasta" /> + </test> + <test> + <param name="sorting_mode_select" value="sortbylength"/> + <param name="infile" value="db.fasta" ftype="fasta" /> + <param name="relabel" value="With spaces" /> + <output name="outfile" file="sorting_result5.fasta" ftype="fasta" /> + </test> </tests> <help> <![CDATA[ |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/clustering_blast6out_result2.tab --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clustering_blast6out_result2.tab Wed Aug 26 13:34:22 2015 -0400 |
| b |
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|
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/clustering_centroids_result2.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clustering_centroids_result2.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| b'@@ -0,0 +1,8256 @@\n+>b235271fbc8a6c9d990037857189ee9a;size=86;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGTGCATTCCACTGGCCTATTGG\n+TTAACTCCAACTTGGCTCATTTGGAATACGCCATCTTTAGGCAGACCCGTCGTGGCATTAGGTTGTCGTGATGGTTACGC\n+CTATCGTTTACTGTGAAGAAATTAGGGTGTTCAAAGCAGGCTTATGCCATGAATACGTTAGCATGGAATAATGAGATAGG\n+ATTTCGGTACTATTTTGTTGGTTTGTGTACGGAAATAATGATTAACAGGAACAGTGTTGTGGGTATTCGTATTTCGTTGT\n+CAGAGGTGAAATTCTTGGATTTACGAAAGACGAACGACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>7e02ae2e1e404d4e7c6035a6e374d29d;size=105;\n+AGCTCCAATAGCGTATACTAATGTTGTTGCAGTTAAAAAGCTCGTAGTCGGATTTCAGTAGGCTCAGTTAAGTCTCTTCT\n+ATTGAGTTCTTTATGGGCCTGCTTCTTTGACAGAAACTTCTATGTTATTCATTTAGCGTGGGTAGCGACTGTCTCTTTTA\n+CTTTGAGAAAATTAGAGTGTTCAAAGCAGGTATTCGCCTGAATATTACTCTTGGAATAATGCTATAAGACTTTGGTTCTA\n+ATGTATTGGTGATTGGGACCAGAGTAATGATTGATAGGGACGGTTGGGGTCTTACGTACTGCAAAGCGAGAGGTGAAATT\n+CTTGGACCTTTGTATGACGAACAACTGCGAAAGCATTGGACTAGGACGTTCCCG\n+>39392bbb9626a64e6663c05b70293e7c;size=94;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGACTGAGGGCGGTTTGCTTG\n+CTAGTATTACTGCCCTATAGTCCGTAGTTTTGCCAGAGGTTTCGGGGTGCTCTTAATCGAGTGTCCCGGGATGCTGGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTATTACGCCTGAATATTCGTGCATGGAATAATAGAATAGGAAGT\n+CGTTTCTATTTTGTTGGTTTTCGGAAATCGACTTAATGATTAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>b970fcbdd71ad2a333f702c7ecfe7114;size=63;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCAGGAGCGACCGGTCACACAC\n+TCTGTGCGTGAACTTGTGTTGTCTCTGGCCATCCTTGGGGAGATCCTGTTTGGCATTAAGTTGTCGGGCAGGGGATACCC\n+ATCGTTTACTGTGAAAAAATTAGAGTGTTTAAAGCAGGCTTATGCCGTTGAATATATTAGCATGGAATAATAAGATAGGA\n+CTTCGGAACTATTTTGTTGGTTTGCGTTACGAAGTAATGATTAATAGGGACAGTTGGGGGTATTCGTATTTCATTGTCAG\n+AGGTGAAATTCTTGGATTTCTGAAAGACGAACTACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>a9d668eae33f9fd4484585d9fe52b05e;size=73;\n+AGCTCCAATAGCGTATACTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTTGGAGTGTGAGTGAATGGTCGATCG\n+AAAGATTGTACTGTTCGGCACACTCTTCTCTTCGGTTGCGTGTGTAGTGCCCTTAACTGAGTGCTGCACTCGACCGGAAT\n+TTTTACCTTGAAAAAATTAGAGTGTTCAAAGCAGACCTGATTATGTCTGAATATTCGTGCATGGAATAATAAAATAAGAA\n+CTTGGTTCTATTTTATTGGTTTTCGGAACTCGAGTTAATGATTAAGAGGGACAGACGGGGGCATCCGTACTCTGCCGTTA\n+GAGGTGAAATTCTTGGATCGGCGGAAGACGCGCAACTGCGAAAGCATTTGCCAAGAATGTTTTCT\n+>da17e1a54e88120e294c7e68e350f47f;size=38;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGGGGGCGCAGATTGTCCGCAGA\n+CGCGTGTGCAGATGCGCCCTTTCATCCTTCTGTTAACGTCTCTTGACATTCATTTGTTGGTGGCGGGCTCAGATATTTTA\n+CCTTGAGAAAATTAGAGTGTTTCAGGCAGGCTCGCGTCGGAATACATTAGCATGGAATAATAGAATAGGACTCAGTCCTC\n+CTTTGTTGGTTTGAGGGGTCAGAGTAATGGTTAATAGGGATAGTTGGGGGCATTAGTATTTGACTGTCAGAGGTGAAATT\n+CTCGGATTTGTTAAAGACTAACTTATGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>efbd11c972faa734253f779fc4eb2a64;size=70;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCAACAGCCTTGAAGCGGTTAACTTT\n+GTAGTTTTACTGCTTTGTAGGCTGTGCTTTTGCTGGAGGTTTAGGGGTGCTCTTGATCGAGTGTCTCTGGATGCCAGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTAAAATGCCTGAATATTCGTGCATGGAATAATAGAATAGGATGT\n+CGATCCTATTTTGTTGGTTTTCGGGACTCGACATAATGATAAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>aecd442213d89e3f43949aee5040a3ed;size=50;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTCGGAGCAGGTTGATTGGTCCGTCCT\n+GAAGGATGCTGTACTGATCGGTCTGCTCTTCTTCGCGAAGACTCCGTGTGCCCTTAACTGGGTGGGCGAAGGATTCGCGA\n+CGTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCAATCGCTTGGATATCTCAGCATGGAATAATAGAATAGGACTTT\n+GGTCTTATTTTGTTGGTTTCCGAGACCGAAGTAATGATTAATAGGGACAGTTGGGGGCATTCGTATTTCATTGTCAGAGG\n+TGAAATTCTTGGATTTATGAAAGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>ea64ae1d6dddc2146105a882229c81bb;size=58;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGGCAGGGGGTGGTTCGCTCT\n+TCAGCGCTACTGCCCCGCTTTGCCCGTGTGATTGGCGGAGGTTTCGGGGTGCTCTTCGTTGAGTGACTCGGAGCGCCGTC\n+AGGTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTTTTCACGCTTGAATATTCGTGCATGGAATAATGGAATAGGA\n+ACTCGTTTCTATTTTGTTGGTTTTCGGAAATCGAGTTAATGATTAACAGGGACAATTGGGGGCATTAGTATTCAGACGAC\n+AGAGGTGAAATTCTTGGACCGTCTGAAGACTGACTACTGCGAAAGCATTTGCCAAGAGTGTTTTCA\n+>26d2046e1a0f79450d6233ef29aab44e;size=36;\n+AGCTCCAATAG'..b'ATTCTTGGATCGCAGCAAGACGAACTAACGCGAAAGCATTTGTCAAGAATGTTTTTG\n+>8b580ba225c9ae8df06f925310b59e4e;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTCTGAGTCTTGGCCGGCGGTGAGCGTCCGTGGC\n+TGAATTTTTTGGTCGCGCGCATGCGATACCCGCTAGCCATTGTACTTCGGAGGAACACGGCTTGTGCTTTTCATTAAGTG\n+CTCGTGGGATTCCGATAGTTTACTTTGAGAAAAATAGAGTGTTCAAAGCAGGCGTTTTTGCCGTTGAATACATTAGCATG\n+GGATAATGGAATAGGACATTGGTTCTATTTTGTTGGTTTACGGACCGATGTAATGATTAATAGGAACAGTTGGGGACATT\n+TATATTCCATGGCTAGAGGTGAAATTCTTGGATTCATGGAAGATAAACTATTGCGAAAGCATTTGTCAAAGATGTTTTCA\n+>8e9a6185e05151042cc0beaadb77eec0;size=1;\n+AGCTCCGGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCATTGCTTTTCAGCTAACCTG\n+CTCGCTAGTCGAGTTTGTGTTTGGTCTGAAGCTGCCATCCTTCCAGAGACCTTGTCATACCCTTCATTGGGCCGTGATAG\n+TGATCTGGAACTTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCGATCTCGCTGTGAATACATTAGCATGGAATAAT\n+AATTTAGGACTTCTGTTCCTATTTTGTTGGTTCTAGGACTGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTCGTATT\n+GAATGGCCAGAGGTGAAATTCTTGGATTCATTCAAGACGAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>a23d5d75d02581e3115e23a6a2fe031b;size=1;\n+AGCTCCGCCAGTGTATATCTATGCTGCTGCGGTTAAAAAGCTCGTAGTTGGATCTGCGTGCTAGAGACTGGTCCACCTAT\n+GGGTGTGCACTGGATCTCAGCACTGAATCGTTGGTTTTCTCTTTATGCCTTTAACCGGGTGTACTGAGTGACTAACATGT\n+TTACTTTGAAAAAATTAGAGTGCTTAAAACAAGCGATTTGCTTGAATATTCGTGCATGGAATAATAGAATAGGACCTTGG\n+TTCTATTTTGTTGGTTTTCGGAACACAAGGTAATGATTAAGAGGGACAGACGGGGGCATTCATATTTCGACGTTAGAGGT\n+GAAATTCTTGGATCGTCGAAAGATGCACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>a9a1fbfca4ade41ce328b07594f11688;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGTTGAGGACAGCCGGTCCGCACT\n+ATGTGCGTGTATCTGGTTTGGCCTTGGCATCCTCTTGAGGAACGTTTCTGCGCTTAATTGCGTGGAGCGGTATTCAAGAC\n+TTTTACTTTGAGGAAATTAGAGTGTTCACGGCAGGCAAGCGCCTTGAATACATTAGCATGGAATGATAATATAGGATCTT\n+GGTTCTATTTTGTTGGTTTCTAGGGCTAAGGTAATGATTAATAGGGATAATTGGGGGCATTTGTATTAACGCGTCAGAGG\n+TGGAATTCTTGGATTGCGTTACGACAAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>aa026d2676cecd33e4a002dbb455ada8;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGACTGAGGGCGGTTTGCTTG\n+CTAGTATTACTGCCCTATAGTCCGTAGTTTTGCCAGAGGTTTCGGGTGCTCTTAATCGAGTGTCCCGGGATGCTGGCAGG\n+TTTACTTTGAAAAAAATTAGAGTGCTCAAAGCAGGCTATTACGCCTGAATATTCGTGCATGGAATAATAGAATAGGAAGT\n+CGTTTCTATTTTGTTGGTTTTTCGGAAATCGACTTAATGATTAATAGGGACAGTCGGGGGGCATTTGTATTCAAACGACA\n+GAGGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>b0f7bb5e2512ce1b8140fd67d40f0ca2;size=1;\n+AGCTCCAGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGATATTACGCCCTAGTCTGCCGC\n+AAGTTGTGGTTTGTGCTGGTGTGCGTTTATCTTCCTTCTAGAAAGGCTTGTGGCGTCTTTGTGCGTCCACTTGTTCGATC\n+TAGATCTTTTACTTTGAATAAATTAGAGTGTTCAAAGCAGGCAATCGCTGTGAATACATTAGCATGGAATAATAATATAG\n+GACTTCGATTCTATTTTGTTGGTTTTCAGAACGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTAGTATTGGCCGGCT\n+AGAGGTGAAATTCGTATTCGGCTAAGACTAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>bdaad40d1a72de52eebf25010f5b300f;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGCTGAGGATGACCGGTCCGCCCA\n+CTGGGTGAGTATCTGGCTCAGCCTTGGCATCTTCCTGAAGAACGTATCTGCACTTGACTGTGTGGTTCGGTATTTAGGAC\n+ATTTACTTTGAGGAAATTAGAGTGTTTCAAGCAAGCGTACGCCTTGAATACATTAGCATGGAATAATAAGATAGGACCTC\n+AGTCCTATTTTGTTGGTTTCTAGAGCTGAGGTAATGATTGATAGGGATAGTTGGGGGCATTCGTATTTAACTGTCAGAGG\n+TGAAATTCTTGGATTTGTTAAAGACGGACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>c72b7875fe56dca4f7d9c24360650a25;size=1;\n+AGCTCTAATAGCGTATATTAATGTTGTTGCGGTTAAAAAGCTCGTGGTTGAAAGTGAAGGGTAAAACTGGATCTGGGGAA\n+ACCCATTTGCAGTTATTAGCGCGTTTTAAGGTATTCGGTTTACTTGACTTAATTGTCAAATAAGCTTAACGGATGCCTTG\n+TAGCTACTCTGATAAAATCAGAGTGCTTAAAACAAGCCTTTAAGCTTGTATATTTGTGCATAGTATAGCAAAATATGACC\n+TAAGCTAATAAAGATGGTGATTAGCCGTGGTAATGATTAAAAGGGATTGTCGGAGGCATTTGTATTTGAAAGTGAGAGGT\n+GAAATTCTATGATCTTTCAAAGACAAACTAGCGCGAAAGCATTTGCCAAGTATGTTTTCA\n+>c8403bc529537d14794709f99640ac8f;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTCGGAGCAGGTTGATTGGTCCGTCCT\n+GAAGGATGCTGTACTGATCGGTCTGCTCTTCTTCGCGAAGACTCCGTGTGCCCTTAACTGGGTGGGCGAAGGATTCGCGA\n+CGTTTACTTGAAAAAATTGAGTGTTCAAAGCAGGCAATCGCTTGGATATCTCAGCATGGAATAATAGAATAGGACTTTGG\n+TCTTATTTTGTTGGTTTCCGAGACCGAAGTAATGATTAATAGGGACAGTTGGGGGCATTCGTATTTCATTGTCAGAGGTG\n+AAATTCTTGGATTTATGAAAGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n' |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/clustering_centroids_result4.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clustering_centroids_result4.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| b'@@ -0,0 +1,7871 @@\n+>b235271fbc8a6c9d990037857189ee9a;size=94;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGTGCATTCCACTGGCCTATTGG\n+TTAACTCCAACTTGGCTCATTTGGAATACGCCATCTTTAGGCAGACCCGTCGTGGCATTAGGTTGTCGTGATGGTTACGC\n+CTATCGTTTACTGTGAAGAAATTAGGGTGTTCAAAGCAGGCTTATGCCATGAATACGTTAGCATGGAATAATGAGATAGG\n+ATTTCGGTACTATTTTGTTGGTTTGTGTACGGAAATAATGATTAACAGGAACAGTGTTGTGGGTATTCGTATTTCGTTGT\n+CAGAGGTGAAATTCTTGGATTTACGAAAGACGAACGACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>7e02ae2e1e404d4e7c6035a6e374d29d;size=117;\n+AGCTCCAATAGCGTATACTAATGTTGTTGCAGTTAAAAAGCTCGTAGTCGGATTTCAGTAGGCTCAGTTAAGTCTCTTCT\n+ATTGAGTTCTTTATGGGCCTGCTTCTTTGACAGAAACTTCTATGTTATTCATTTAGCGTGGGTAGCGACTGTCTCTTTTA\n+CTTTGAGAAAATTAGAGTGTTCAAAGCAGGTATTCGCCTGAATATTACTCTTGGAATAATGCTATAAGACTTTGGTTCTA\n+ATGTATTGGTGATTGGGACCAGAGTAATGATTGATAGGGACGGTTGGGGTCTTACGTACTGCAAAGCGAGAGGTGAAATT\n+CTTGGACCTTTGTATGACGAACAACTGCGAAAGCATTGGACTAGGACGTTCCCG\n+>39392bbb9626a64e6663c05b70293e7c;size=118;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGACTGAGGGCGGTTTGCTTG\n+CTAGTATTACTGCCCTATAGTCCGTAGTTTTGCCAGAGGTTTCGGGGTGCTCTTAATCGAGTGTCCCGGGATGCTGGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTATTACGCCTGAATATTCGTGCATGGAATAATAGAATAGGAAGT\n+CGTTTCTATTTTGTTGGTTTTCGGAAATCGACTTAATGATTAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>b970fcbdd71ad2a333f702c7ecfe7114;size=64;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCAGGAGCGACCGGTCACACAC\n+TCTGTGCGTGAACTTGTGTTGTCTCTGGCCATCCTTGGGGAGATCCTGTTTGGCATTAAGTTGTCGGGCAGGGGATACCC\n+ATCGTTTACTGTGAAAAAATTAGAGTGTTTAAAGCAGGCTTATGCCGTTGAATATATTAGCATGGAATAATAAGATAGGA\n+CTTCGGAACTATTTTGTTGGTTTGCGTTACGAAGTAATGATTAATAGGGACAGTTGGGGGTATTCGTATTTCATTGTCAG\n+AGGTGAAATTCTTGGATTTCTGAAAGACGAACTACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>a9d668eae33f9fd4484585d9fe52b05e;size=78;\n+AGCTCCAATAGCGTATACTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTTGGAGTGTGAGTGAATGGTCGATCG\n+AAAGATTGTACTGTTCGGCACACTCTTCTCTTCGGTTGCGTGTGTAGTGCCCTTAACTGAGTGCTGCACTCGACCGGAAT\n+TTTTACCTTGAAAAAATTAGAGTGTTCAAAGCAGACCTGATTATGTCTGAATATTCGTGCATGGAATAATAAAATAAGAA\n+CTTGGTTCTATTTTATTGGTTTTCGGAACTCGAGTTAATGATTAAGAGGGACAGACGGGGGCATCCGTACTCTGCCGTTA\n+GAGGTGAAATTCTTGGATCGGCGGAAGACGCGCAACTGCGAAAGCATTTGCCAAGAATGTTTTCT\n+>da17e1a54e88120e294c7e68e350f47f;size=38;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGGGGGCGCAGATTGTCCGCAGA\n+CGCGTGTGCAGATGCGCCCTTTCATCCTTCTGTTAACGTCTCTTGACATTCATTTGTTGGTGGCGGGCTCAGATATTTTA\n+CCTTGAGAAAATTAGAGTGTTTCAGGCAGGCTCGCGTCGGAATACATTAGCATGGAATAATAGAATAGGACTCAGTCCTC\n+CTTTGTTGGTTTGAGGGGTCAGAGTAATGGTTAATAGGGATAGTTGGGGGCATTAGTATTTGACTGTCAGAGGTGAAATT\n+CTCGGATTTGTTAAAGACTAACTTATGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>efbd11c972faa734253f779fc4eb2a64;size=61;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCAACAGCCTTGAAGCGGTTAACTTT\n+GTAGTTTTACTGCTTTGTAGGCTGTGCTTTTGCTGGAGGTTTAGGGGTGCTCTTGATCGAGTGTCTCTGGATGCCAGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTAAAATGCCTGAATATTCGTGCATGGAATAATAGAATAGGATGT\n+CGATCCTATTTTGTTGGTTTTCGGGACTCGACATAATGATAAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>aecd442213d89e3f43949aee5040a3ed;size=55;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTCGGAGCAGGTTGATTGGTCCGTCCT\n+GAAGGATGCTGTACTGATCGGTCTGCTCTTCTTCGCGAAGACTCCGTGTGCCCTTAACTGGGTGGGCGAAGGATTCGCGA\n+CGTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCAATCGCTTGGATATCTCAGCATGGAATAATAGAATAGGACTTT\n+GGTCTTATTTTGTTGGTTTCCGAGACCGAAGTAATGATTAATAGGGACAGTTGGGGGCATTCGTATTTCATTGTCAGAGG\n+TGAAATTCTTGGATTTATGAAAGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>ea64ae1d6dddc2146105a882229c81bb;size=62;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGGCAGGGGGTGGTTCGCTCT\n+TCAGCGCTACTGCCCCGCTTTGCCCGTGTGATTGGCGGAGGTTTCGGGGTGCTCTTCGTTGAGTGACTCGGAGCGCCGTC\n+AGGTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTTTTCACGCTTGAATATTCGTGCATGGAATAATGGAATAGGA\n+ACTCGTTTCTATTTTGTTGGTTTTCGGAAATCGAGTTAATGATTAACAGGGACAATTGGGGGCATTAGTATTCAGACGAC\n+AGAGGTGAAATTCTTGGACCGTCTGAAGACTGACTACTGCGAAAGCATTTGCCAAGAGTGTTTTCA\n+>26d2046e1a0f79450d6233ef29aab44e;size=45;\n+AGCTCCAATA'..b'\n+GAAATTCTTGGATTTATGAAAGATGAACTTATGCGAAAGCATTTACCAAGGATGTTTTCA\n+>829a92af0a7cb2a6faf53a31f74ac32e;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCCGGGCACCGATGTCCGCTGA\n+TCGCGTGCGCAGAGGTGCCCCGCCATCCTTCTGTTAACTCAGCCACTGGATTTACTTCCGGGTTGAGGGCTCAGATATTT\n+TACCTTGAGAAAATTAGAGTGTTTCAGGCAGGCTTGCGCCGGAATACATTAGCATGGAATAATGGAATAGGACTTCCGCC\n+TCTTCTGTTGGTCTGAGGGGTGAAAGTAATGATTAATAGGGATAGTTGGGGGCATTAGTACTTAACTGTCAGAGGTGAAA\n+TTCTCGGATTAGTTAAAGACTAACTTATGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>85a816fc48b95e011c25738668ff92f5;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGTGGTAGGCAGCCGGTCCACACT\n+ATGTGTGAGTATCTGGTTCGGCTACTGCATCCTCCTGAGGAACGTTGGTGCGCTTCACTGCGTGGCACGGTATTCAGGAC\n+TTTTACTTTGAGGAAATTAGAGTGTTCACGGCAGGCGTTTGCCCTGAATATATTAGCATGGAATAATGATATAGGATCCA\n+CGTCCTATTTTGTTGGTTTCTAGGACGAGGATAATGATTAATAGGGATAATTGGGGGCATTCGTATTAACACGTCAGAGG\n+TGGAATTCTTGGATTGTGTTACGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>88ee2d113b38cac2a65f4b8fdefc85e6;size=1;\n+AGCCTTCACAAGCATATACAAATGCTGTTGCGTTTAAAAAGCTCGTAGTTGAATTTGTTGTGTACTGCTCTAAAATCATA\n+CAAAATTGTATGTAAGAGTAAGTAACCATCGTGTTGTCGAGTTTACTTGCGCTTAACTGTGATGAGTTTTTGAGATGTAC\n+GCTTTACTTTGAGAAAATTTGGGTGTTTAAAGCAGCCTTTGGGTGTGAATGCTGTAGCATGGAATAATAGAAAATGACTG\n+TATACCCGTTTGGTTGGTCTTGGGTTATGTAGTAATGATTGAAAAGGACAGGCGGGGACATTCGAATTGTTGCGTTAGAG\n+GTGAAATTCTTGGATCGCAGCAAGACGAACTAACGCGAAAGCATTTGTCAAGAATGTTTTTG\n+>8b580ba225c9ae8df06f925310b59e4e;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTCTGAGTCTTGGCCGGCGGTGAGCGTCCGTGGC\n+TGAATTTTTTGGTCGCGCGCATGCGATACCCGCTAGCCATTGTACTTCGGAGGAACACGGCTTGTGCTTTTCATTAAGTG\n+CTCGTGGGATTCCGATAGTTTACTTTGAGAAAAATAGAGTGTTCAAAGCAGGCGTTTTTGCCGTTGAATACATTAGCATG\n+GGATAATGGAATAGGACATTGGTTCTATTTTGTTGGTTTACGGACCGATGTAATGATTAATAGGAACAGTTGGGGACATT\n+TATATTCCATGGCTAGAGGTGAAATTCTTGGATTCATGGAAGATAAACTATTGCGAAAGCATTTGTCAAAGATGTTTTCA\n+>8e9a6185e05151042cc0beaadb77eec0;size=1;\n+AGCTCCGGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCATTGCTTTTCAGCTAACCTG\n+CTCGCTAGTCGAGTTTGTGTTTGGTCTGAAGCTGCCATCCTTCCAGAGACCTTGTCATACCCTTCATTGGGCCGTGATAG\n+TGATCTGGAACTTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCGATCTCGCTGTGAATACATTAGCATGGAATAAT\n+AATTTAGGACTTCTGTTCCTATTTTGTTGGTTCTAGGACTGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTCGTATT\n+GAATGGCCAGAGGTGAAATTCTTGGATTCATTCAAGACGAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>a23d5d75d02581e3115e23a6a2fe031b;size=1;\n+AGCTCCGCCAGTGTATATCTATGCTGCTGCGGTTAAAAAGCTCGTAGTTGGATCTGCGTGCTAGAGACTGGTCCACCTAT\n+GGGTGTGCACTGGATCTCAGCACTGAATCGTTGGTTTTCTCTTTATGCCTTTAACCGGGTGTACTGAGTGACTAACATGT\n+TTACTTTGAAAAAATTAGAGTGCTTAAAACAAGCGATTTGCTTGAATATTCGTGCATGGAATAATAGAATAGGACCTTGG\n+TTCTATTTTGTTGGTTTTCGGAACACAAGGTAATGATTAAGAGGGACAGACGGGGGCATTCATATTTCGACGTTAGAGGT\n+GAAATTCTTGGATCGTCGAAAGATGCACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>a9a1fbfca4ade41ce328b07594f11688;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGTTGAGGACAGCCGGTCCGCACT\n+ATGTGCGTGTATCTGGTTTGGCCTTGGCATCCTCTTGAGGAACGTTTCTGCGCTTAATTGCGTGGAGCGGTATTCAAGAC\n+TTTTACTTTGAGGAAATTAGAGTGTTCACGGCAGGCAAGCGCCTTGAATACATTAGCATGGAATGATAATATAGGATCTT\n+GGTTCTATTTTGTTGGTTTCTAGGGCTAAGGTAATGATTAATAGGGATAATTGGGGGCATTTGTATTAACGCGTCAGAGG\n+TGGAATTCTTGGATTGCGTTACGACAAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>b0f7bb5e2512ce1b8140fd67d40f0ca2;size=1;\n+AGCTCCAGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGATATTACGCCCTAGTCTGCCGC\n+AAGTTGTGGTTTGTGCTGGTGTGCGTTTATCTTCCTTCTAGAAAGGCTTGTGGCGTCTTTGTGCGTCCACTTGTTCGATC\n+TAGATCTTTTACTTTGAATAAATTAGAGTGTTCAAAGCAGGCAATCGCTGTGAATACATTAGCATGGAATAATAATATAG\n+GACTTCGATTCTATTTTGTTGGTTTTCAGAACGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTAGTATTGGCCGGCT\n+AGAGGTGAAATTCGTATTCGGCTAAGACTAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>bdaad40d1a72de52eebf25010f5b300f;size=1;\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGCTGAGGATGACCGGTCCGCCCA\n+CTGGGTGAGTATCTGGCTCAGCCTTGGCATCTTCCTGAAGAACGTATCTGCACTTGACTGTGTGGTTCGGTATTTAGGAC\n+ATTTACTTTGAGGAAATTAGAGTGTTTCAAGCAAGCGTACGCCTTGAATACATTAGCATGGAATAATAAGATAGGACCTC\n+AGTCCTATTTTGTTGGTTTCTAGAGCTGAGGTAATGATTGATAGGGATAGTTGGGGGCATTCGTATTTAACTGTCAGAGG\n+TGAAATTCTTGGATTTGTTAAAGACGGACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n' |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/clustering_notmatched_result2.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clustering_notmatched_result2.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| b'@@ -0,0 +1,8256 @@\n+>b235271fbc8a6c9d990037857189ee9a;size=22254\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGTGCATTCCACTGGCCTATTGG\n+TTAACTCCAACTTGGCTCATTTGGAATACGCCATCTTTAGGCAGACCCGTCGTGGCATTAGGTTGTCGTGATGGTTACGC\n+CTATCGTTTACTGTGAAGAAATTAGGGTGTTCAAAGCAGGCTTATGCCATGAATACGTTAGCATGGAATAATGAGATAGG\n+ATTTCGGTACTATTTTGTTGGTTTGTGTACGGAAATAATGATTAACAGGAACAGTGTTGTGGGTATTCGTATTTCGTTGT\n+CAGAGGTGAAATTCTTGGATTTACGAAAGACGAACGACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>7e02ae2e1e404d4e7c6035a6e374d29d;size=20728\n+AGCTCCAATAGCGTATACTAATGTTGTTGCAGTTAAAAAGCTCGTAGTCGGATTTCAGTAGGCTCAGTTAAGTCTCTTCT\n+ATTGAGTTCTTTATGGGCCTGCTTCTTTGACAGAAACTTCTATGTTATTCATTTAGCGTGGGTAGCGACTGTCTCTTTTA\n+CTTTGAGAAAATTAGAGTGTTCAAAGCAGGTATTCGCCTGAATATTACTCTTGGAATAATGCTATAAGACTTTGGTTCTA\n+ATGTATTGGTGATTGGGACCAGAGTAATGATTGATAGGGACGGTTGGGGTCTTACGTACTGCAAAGCGAGAGGTGAAATT\n+CTTGGACCTTTGTATGACGAACAACTGCGAAAGCATTGGACTAGGACGTTCCCG\n+>39392bbb9626a64e6663c05b70293e7c;size=11535\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGACTGAGGGCGGTTTGCTTG\n+CTAGTATTACTGCCCTATAGTCCGTAGTTTTGCCAGAGGTTTCGGGGTGCTCTTAATCGAGTGTCCCGGGATGCTGGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTATTACGCCTGAATATTCGTGCATGGAATAATAGAATAGGAAGT\n+CGTTTCTATTTTGTTGGTTTTCGGAAATCGACTTAATGATTAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>b970fcbdd71ad2a333f702c7ecfe7114;size=10907\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCAGGAGCGACCGGTCACACAC\n+TCTGTGCGTGAACTTGTGTTGTCTCTGGCCATCCTTGGGGAGATCCTGTTTGGCATTAAGTTGTCGGGCAGGGGATACCC\n+ATCGTTTACTGTGAAAAAATTAGAGTGTTTAAAGCAGGCTTATGCCGTTGAATATATTAGCATGGAATAATAAGATAGGA\n+CTTCGGAACTATTTTGTTGGTTTGCGTTACGAAGTAATGATTAATAGGGACAGTTGGGGGTATTCGTATTTCATTGTCAG\n+AGGTGAAATTCTTGGATTTCTGAAAGACGAACTACTGCGAAAGCATTTACCAAGGATGTTTTCA\n+>a9d668eae33f9fd4484585d9fe52b05e;size=8638\n+AGCTCCAATAGCGTATACTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTTGGAGTGTGAGTGAATGGTCGATCG\n+AAAGATTGTACTGTTCGGCACACTCTTCTCTTCGGTTGCGTGTGTAGTGCCCTTAACTGAGTGCTGCACTCGACCGGAAT\n+TTTTACCTTGAAAAAATTAGAGTGTTCAAAGCAGACCTGATTATGTCTGAATATTCGTGCATGGAATAATAAAATAAGAA\n+CTTGGTTCTATTTTATTGGTTTTCGGAACTCGAGTTAATGATTAAGAGGGACAGACGGGGGCATCCGTACTCTGCCGTTA\n+GAGGTGAAATTCTTGGATCGGCGGAAGACGCGCAACTGCGAAAGCATTTGCCAAGAATGTTTTCT\n+>da17e1a54e88120e294c7e68e350f47f;size=6062\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGGGGGCGCAGATTGTCCGCAGA\n+CGCGTGTGCAGATGCGCCCTTTCATCCTTCTGTTAACGTCTCTTGACATTCATTTGTTGGTGGCGGGCTCAGATATTTTA\n+CCTTGAGAAAATTAGAGTGTTTCAGGCAGGCTCGCGTCGGAATACATTAGCATGGAATAATAGAATAGGACTCAGTCCTC\n+CTTTGTTGGTTTGAGGGGTCAGAGTAATGGTTAATAGGGATAGTTGGGGGCATTAGTATTTGACTGTCAGAGGTGAAATT\n+CTCGGATTTGTTAAAGACTAACTTATGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>efbd11c972faa734253f779fc4eb2a64;size=5440\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCAACAGCCTTGAAGCGGTTAACTTT\n+GTAGTTTTACTGCTTTGTAGGCTGTGCTTTTGCTGGAGGTTTAGGGGTGCTCTTGATCGAGTGTCTCTGGATGCCAGCAG\n+GTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTAAAATGCCTGAATATTCGTGCATGGAATAATAGAATAGGATGT\n+CGATCCTATTTTGTTGGTTTTCGGGACTCGACATAATGATAAATAGGGACAGTCGGGGGCATTTGTATTCAAACGACAGA\n+GGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>aecd442213d89e3f43949aee5040a3ed;size=5318\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTCGGAGCAGGTTGATTGGTCCGTCCT\n+GAAGGATGCTGTACTGATCGGTCTGCTCTTCTTCGCGAAGACTCCGTGTGCCCTTAACTGGGTGGGCGAAGGATTCGCGA\n+CGTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCAATCGCTTGGATATCTCAGCATGGAATAATAGAATAGGACTTT\n+GGTCTTATTTTGTTGGTTTCCGAGACCGAAGTAATGATTAATAGGGACAGTTGGGGGCATTCGTATTTCATTGTCAGAGG\n+TGAAATTCTTGGATTTATGAAAGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>ea64ae1d6dddc2146105a882229c81bb;size=5125\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGGCAGGGGGTGGTTCGCTCT\n+TCAGCGCTACTGCCCCGCTTTGCCCGTGTGATTGGCGGAGGTTTCGGGGTGCTCTTCGTTGAGTGACTCGGAGCGCCGTC\n+AGGTTTACTTTGAAAAAATTAGAGTGCTCAAAGCAGGCTTTTCACGCTTGAATATTCGTGCATGGAATAATGGAATAGGA\n+ACTCGTTTCTATTTTGTTGGTTTTCGGAAATCGAGTTAATGATTAACAGGGACAATTGGGGGCATTAGTATTCAGACGAC\n+AGAGGTGAAATTCTTGGACCGTCTGAAGACTGACTACTGCGAAAGCATTTGCCAAGAGTGTTTTCA\n+>26d2046e1a0f79450d6233ef29aab44e;size=4937'..b'ATTCTTGGATCGCAGCAAGACGAACTAACGCGAAAGCATTTGTCAAGAATGTTTTTG\n+>8b580ba225c9ae8df06f925310b59e4e;size=29\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTCTGAGTCTTGGCCGGCGGTGAGCGTCCGTGGC\n+TGAATTTTTTGGTCGCGCGCATGCGATACCCGCTAGCCATTGTACTTCGGAGGAACACGGCTTGTGCTTTTCATTAAGTG\n+CTCGTGGGATTCCGATAGTTTACTTTGAGAAAAATAGAGTGTTCAAAGCAGGCGTTTTTGCCGTTGAATACATTAGCATG\n+GGATAATGGAATAGGACATTGGTTCTATTTTGTTGGTTTACGGACCGATGTAATGATTAATAGGAACAGTTGGGGACATT\n+TATATTCCATGGCTAGAGGTGAAATTCTTGGATTCATGGAAGATAAACTATTGCGAAAGCATTTGTCAAAGATGTTTTCA\n+>8e9a6185e05151042cc0beaadb77eec0;size=29\n+AGCTCCGGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGCATTGCTTTTCAGCTAACCTG\n+CTCGCTAGTCGAGTTTGTGTTTGGTCTGAAGCTGCCATCCTTCCAGAGACCTTGTCATACCCTTCATTGGGCCGTGATAG\n+TGATCTGGAACTTTTACTTTGAAAAAATTAGAGTGTTCAAAGCAGGCGATCTCGCTGTGAATACATTAGCATGGAATAAT\n+AATTTAGGACTTCTGTTCCTATTTTGTTGGTTCTAGGACTGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTCGTATT\n+GAATGGCCAGAGGTGAAATTCTTGGATTCATTCAAGACGAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>a23d5d75d02581e3115e23a6a2fe031b;size=29\n+AGCTCCGCCAGTGTATATCTATGCTGCTGCGGTTAAAAAGCTCGTAGTTGGATCTGCGTGCTAGAGACTGGTCCACCTAT\n+GGGTGTGCACTGGATCTCAGCACTGAATCGTTGGTTTTCTCTTTATGCCTTTAACCGGGTGTACTGAGTGACTAACATGT\n+TTACTTTGAAAAAATTAGAGTGCTTAAAACAAGCGATTTGCTTGAATATTCGTGCATGGAATAATAGAATAGGACCTTGG\n+TTCTATTTTGTTGGTTTTCGGAACACAAGGTAATGATTAAGAGGGACAGACGGGGGCATTCATATTTCGACGTTAGAGGT\n+GAAATTCTTGGATCGTCGAAAGATGCACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>a9a1fbfca4ade41ce328b07594f11688;size=29\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGTTGAGGACAGCCGGTCCGCACT\n+ATGTGCGTGTATCTGGTTTGGCCTTGGCATCCTCTTGAGGAACGTTTCTGCGCTTAATTGCGTGGAGCGGTATTCAAGAC\n+TTTTACTTTGAGGAAATTAGAGTGTTCACGGCAGGCAAGCGCCTTGAATACATTAGCATGGAATGATAATATAGGATCTT\n+GGTTCTATTTTGTTGGTTTCTAGGGCTAAGGTAATGATTAATAGGGATAATTGGGGGCATTTGTATTAACGCGTCAGAGG\n+TGGAATTCTTGGATTGCGTTACGACAAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>aa026d2676cecd33e4a002dbb455ada8;size=29\n+AGCTCCAATAGCGTATATTAAAGTTGTTGTGGTTAAAAAGCTCGTAGTTGGATCTCGGCGGACTGAGGGCGGTTTGCTTG\n+CTAGTATTACTGCCCTATAGTCCGTAGTTTTGCCAGAGGTTTCGGGTGCTCTTAATCGAGTGTCCCGGGATGCTGGCAGG\n+TTTACTTTGAAAAAAATTAGAGTGCTCAAAGCAGGCTATTACGCCTGAATATTCGTGCATGGAATAATAGAATAGGAAGT\n+CGTTTCTATTTTGTTGGTTTTTCGGAAATCGACTTAATGATTAATAGGGACAGTCGGGGGGCATTTGTATTCAAACGACA\n+GAGGTGAAATTCTTGGACCGTTTGAAGACAAACTACTGCGAAAGCATTTGCCAAGAATGTTTTCA\n+>b0f7bb5e2512ce1b8140fd67d40f0ca2;size=29\n+AGCTCCAGTAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGATATTACGCCCTAGTCTGCCGC\n+AAGTTGTGGTTTGTGCTGGTGTGCGTTTATCTTCCTTCTAGAAAGGCTTGTGGCGTCTTTGTGCGTCCACTTGTTCGATC\n+TAGATCTTTTACTTTGAATAAATTAGAGTGTTCAAAGCAGGCAATCGCTGTGAATACATTAGCATGGAATAATAATATAG\n+GACTTCGATTCTATTTTGTTGGTTTTCAGAACGAAGTAATGATTGATAGGGATAGTTGGGGGTGCTAGTATTGGCCGGCT\n+AGAGGTGAAATTCGTATTCGGCTAAGACTAACTTATGCGAAAGCATTCACCAAGGATGTCTTCT\n+>bdaad40d1a72de52eebf25010f5b300f;size=29\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCGGTTAAAAAGCTCGTAGTTGGATTTCTGCTGAGGATGACCGGTCCGCCCA\n+CTGGGTGAGTATCTGGCTCAGCCTTGGCATCTTCCTGAAGAACGTATCTGCACTTGACTGTGTGGTTCGGTATTTAGGAC\n+ATTTACTTTGAGGAAATTAGAGTGTTTCAAGCAAGCGTACGCCTTGAATACATTAGCATGGAATAATAAGATAGGACCTC\n+AGTCCTATTTTGTTGGTTTCTAGAGCTGAGGTAATGATTGATAGGGATAGTTGGGGGCATTCGTATTTAACTGTCAGAGG\n+TGAAATTCTTGGATTTGTTAAAGACGGACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n+>c72b7875fe56dca4f7d9c24360650a25;size=29\n+AGCTCTAATAGCGTATATTAATGTTGTTGCGGTTAAAAAGCTCGTGGTTGAAAGTGAAGGGTAAAACTGGATCTGGGGAA\n+ACCCATTTGCAGTTATTAGCGCGTTTTAAGGTATTCGGTTTACTTGACTTAATTGTCAAATAAGCTTAACGGATGCCTTG\n+TAGCTACTCTGATAAAATCAGAGTGCTTAAAACAAGCCTTTAAGCTTGTATATTTGTGCATAGTATAGCAAAATATGACC\n+TAAGCTAATAAAGATGGTGATTAGCCGTGGTAATGATTAAAAGGGATTGTCGGAGGCATTTGTATTTGAAAGTGAGAGGT\n+GAAATTCTATGATCTTTCAAAGACAAACTAGCGCGAAAGCATTTGCCAAGTATGTTTTCA\n+>c8403bc529537d14794709f99640ac8f;size=29\n+AGCTCCAATAGCGTATATTAAAGTTGTTGCAGTTAAAAAGCTCGTAGTTGGACCTCGGAGCAGGTTGATTGGTCCGTCCT\n+GAAGGATGCTGTACTGATCGGTCTGCTCTTCTTCGCGAAGACTCCGTGTGCCCTTAACTGGGTGGGCGAAGGATTCGCGA\n+CGTTTACTTGAAAAAATTGAGTGTTCAAAGCAGGCAATCGCTTGGATATCTCAGCATGGAATAATAGAATAGGACTTTGG\n+TCTTATTTTGTTGGTTTCCGAGACCGAAGTAATGATTAATAGGGACAGTTGGGGGCATTCGTATTTCATTGTCAGAGGTG\n+AAATTCTTGGATTTATGAAAGACGAACTACTGCGAAAGCATTTGCCAAGGATGTTTTCA\n' |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/clustering_uc_result3.uc --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/clustering_uc_result3.uc Wed Aug 26 13:34:22 2015 -0400 |
| b |
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|
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/dereplication_result2.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/dereplication_result2.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -0,0 +1,3 @@ +>97485665bcded44c4d86c131ca714848;size=4; +gtcgctcctaccgattgaatacgttggtgattgaattggataaagagatatcatcttaaatgatagcaaagcggtaaaca +tttgtaaactagattatttagaggaaggagaagtcgtaacaaggtttcc |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/dereplication_uc_result3.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/dereplication_uc_result3.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -0,0 +1,5 @@ +S 0 129 * * * * * 97485665bcded44c4d86c131ca714848 * +H 0 129 100.0 * 0 0 * 97485665bcded44c4d86c131ca714848 97485665bcded44c4d86c131ca714848 +H 0 129 100.0 * 0 0 * 97485665bcded44c4d86c131ca714848 97485665bcded44c4d86c131ca714848 +H 0 129 100.0 * 0 0 * 97485665bcded44c4d86c131ca714848 97485665bcded44c4d86c131ca714848 +C 0 4 * * * * * 97485665bcded44c4d86c131ca714848 * |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/sorting_result3.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sorting_result3.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -0,0 +1,48 @@ +>TEST1 +MDVTVVVSTADHANVKRRRRRSHVRNRRARGYKSSRARSARMHGVDVDWDVVRSSVTSVSYSDDTDWAGNWAGS +>TEST2 +MSRVVTAVASARATGDSGMGYVHATKTADTTTMRVAARDWVTGRSSKDYWSTTGKSGWDSTAVTTASAK +>TEST3 +MRGTRRGSGGWSGARYAGSVAASDRSDTRATTSAYRHTHAASGARTRAHARHARHRVTVHVVAGVCARV +>TEST4 +MGVYKCYNKKKVGVAVKRYVTKKSYKTANSNADSYNCRKCCKAKGCCDRYWKTVKNDKCKKGVVVYY +>TEST5 +MTVSNTVDYTVSGDRSKKDCNRTCGWRDVRCRTKGTGNSTVTVTKARTVDAVKKMKRTTNSDA +>TEST6 +MVSTRKKNSVYTGRKYGSYHKDDKKYADNKNRKRYVYSVDDAKAKATAKSVD +>TEST7 +MTGAGTSGKKNTTTHTKCRRCGKSYHTKKKVCSSCGGKSAKRRDYWSKAG +>TEST8 +MTGSGTSGKKNKTVHVKCRRCGASYHKTKKVCASCGGKSAKRRDYAWKAG +>TEST9 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>TEST10 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>TEST11 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>TEST12 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>TEST13 +MSSTDTGHATKRTGDCRCGRKGVGKYDWCRCRARGMGRKYK +>TEST14 +MSTVTGKSRDGYSTTDANNVARHVYSGSHGKRSDVSA +>TEST15 +MSTYTVRGSARDGKVDANNVARVYSDGSHNKRTTVAA +>TEST16 +MSTVTGKSRDGYATTDANNVARHVSGSHGKRTDVS +>TEST17 +MTNAGRSKACDCKRKVGCSRYK +>TEST18 +MTNAGRSKACDCKRKVGCSRYK +>TEST19 +MATDSWAAVDAAASRTSYSTS +>TEST20 +MRVRVDRVGVVGGGTKKRGV +>TEST21 +KRGAHGKMNGSVKTTMGSGR +>TEST22 +MSSNATSTGNMNSNHRDSST +>TEST23 +MAHSDNRDTADYGGAHAA +>TEST24 +MMDGSDMDDWRDD |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/sorting_result4.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sorting_result4.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -0,0 +1,48 @@ +>sp|Q66125|2B_CMVQ Suppressor of silencing 2b OS=Cucumber mosaic virus (strain Q) GN=ORF2b PE=1 SV=1 +MDVTVVVSTADHANVKRRRRRSHVRNRRARGYKSSRARSARMHGVDVDWDVVRSSVTSVSYSDDTDWAGNWAGS +>sp|P0DMP9|APOC3_PANTA Apolipoprotein C-III OS=Panthera tigris altaica GN=APOC3 PE=3 SV=1 +MSRVVTAVASARATGDSGMGYVHATKTADTTTMRVAARDWVTGRSSKDYWSTTGKSGWDSTAVTTASAK +>sp|Q89681|DR4_HHV6U Uncharacterized protein DR4 OS=Human herpesvirus 6A (strain Uganda-1102) GN=DR4L PE=4 SV=1 +MRGTRRGSGGWSGARYAGSVAASDRSDTRATTSAYRHTHAASGARTRAHARHARHRVTVHVVAGVCARV +>sp|Q91G65|032R_IIV6 Uncharacterized protein 032R OS=Invertebrate iridescent virus 6 GN=IIV6-032R PE=4 SV=1 +MGVYKCYNKKKVGVAVKRYVTKKSYKTANSNADSYNCRKCCKAKGCCDRYWKTVKNDKCKKGVVVYY +>sp|B3MQ24|ENY2_DROAN Enhancer of yellow 2 transcription factor OS=Drosophila ananassae GN=e(y)2 PE=3 SV=1 +MTVSNTVDYTVSGDRSKKDCNRTCGWRDVRCRTKGTGNSTVTVTKARTVDAVKKMKRTTNSDA +>sp|P20194|A100_SSV1 Uncharacterized protein A-100 OS=Sulfolobus spindle-shape virus 1 GN=a100 PE=1 SV=1 +MVSTRKKNSVYTGRKYGSYHKDDKKYADNKNRKRYVYSVDDAKAKATAKSVD +>tr|M0KT65|M0KT65_9EURY 50S ribosomal protein L37e OS=Haloarcula amylolytica JCM 13557 GN=rpl37e PE=3 SV=1 +MTGAGTSGKKNTTTHTKCRRCGKSYHTKKKVCSSCGGKSAKRRDYWSKAG +>tr|M0MK44|M0MK44_9EURY 50S ribosomal protein L37e OS=Halococcus saccharolyticus DSM 5350 GN=rpl37e PE=3 SV=1 +MTGSGTSGKKNKTVHVKCRRCGASYHKTKKVCASCGGKSAKRRDYAWKAG +>tr|M0D8K9|M0D8K9_9EURY 30S ribosomal protein S14 type Z OS=Halorubrum terrestre JCM 10247 GN=rps14P PE=3 SV=1 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>tr|M0F5C2|M0F5C2_9EURY 30S ribosomal protein S14 type Z OS=Halorubrum hochstenium ATCC 700873 GN=rps14P PE=3 SV=1 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>tr|M0NIQ6|M0NIQ6_9EURY 30S ribosomal protein S14 type Z OS=Halorubrum lipolyticum DSM 21995 GN=rps14P PE=3 SV=1 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>tr|M0PIT7|M0PIT7_9EURY 30S ribosomal protein S14 type Z OS=Halorubrum arcis JCM 13916 GN=rps14P PE=3 SV=1 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>tr|M0MEH5|M0MEH5_9EURY 30S ribosomal protein S14 type Z OS=Halococcus saccharolyticus DSM 5350 GN=rps14P PE=3 SV=1 +MSSTDTGHATKRTGDCRCGRKGVGKYDWCRCRARGMGRKYK +>tr|L9WHT8|L9WHT8_9EURY 50S ribosomal protein L18Ae OS=Natronorubrum bangense JCM 10635 GN=rplX PE=3 SV=1 +MSTVTGKSRDGYSTTDANNVARHVYSGSHGKRSDVSA +>tr|M0KH83|M0KH83_9EURY 50S ribosomal protein L18Ae OS=Haloarcula amylolytica JCM 13557 GN=rplX PE=3 SV=1 +MSTYTVRGSARDGKVDANNVARVYSDGSHNKRTTVAA +>tr|L9WBT3|L9WBT3_9EURY 50S ribosomal protein L18Ae OS=Natronorubrum sulfidifaciens JCM 14089 GN=rplX PE=3 SV=1 +MSTVTGKSRDGYATTDANNVARHVSGSHGKRTDVS +>tr|W9PMP6|W9PMP6_FUSOX Uncharacterized protein OS=Fusarium oxysporum f. sp. pisi HDV247 GN=FOVG_07074 PE=4 SV=1 +MTNAGRSKACDCKRKVGCSRYK +>tr|X0LYM3|X0LYM3_FUSOX Uncharacterized protein OS=Fusarium oxysporum f. sp. vasinfectum 25433 GN=FOTG_17987 PE=4 SV=1 +MTNAGRSKACDCKRKVGCSRYK +>tr|H3BPV3|H3BPV3_HUMAN ATP-dependent RNA helicase DDX19B OS=Homo sapiens GN=DDX19B PE=4 SV=1 +MATDSWAAVDAAASRTSYSTS +>tr|H0ACG9|H0ACG9_HALSG Uncharacterized protein OS=Haloredivivus sp. (strain G17) GN=HRED_08116 PE=4 SV=1 +MRVRVDRVGVVGGGTKKRGV +>tr|N6VV02|N6VV02_9EURY Uncharacterized protein (Fragment) OS=Thermoplasmatales archaeon SCGC AB-539-C06 GN=MBGDC06_00209 PE=4 SV=1 +KRGAHGKMNGSVKTTMGSGR +>tr|Q53RS6|Q53RS6_HUMAN Putative uncharacterized protein ALS2CR3 (Fragment) OS=Homo sapiens GN=ALS2CR3 PE=4 SV=1 +MSSNATSTGNMNSNHRDSST +>tr|V9H0X7|V9H0X7_NEUCS Neurospora crassa DNA for RNA polymerase I second-largest subunit OS=Neurospora crassa PE=4 SV=1 +MAHSDNRDTADYGGAHAA +>tr|Q9BZF8|Q9BZF8_HUMAN NF-E2-related factor 2 (Fragment) OS=Homo sapiens PE=2 SV=1 +MMDGSDMDDWRDD |
| b |
| diff -r fae6527990af -r 8c4e2933a17a test-data/sorting_result5.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sorting_result5.fasta Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -0,0 +1,48 @@ +>With spaces1 +MDVTVVVSTADHANVKRRRRRSHVRNRRARGYKSSRARSARMHGVDVDWDVVRSSVTSVSYSDDTDWAGNWAGS +>With spaces2 +MSRVVTAVASARATGDSGMGYVHATKTADTTTMRVAARDWVTGRSSKDYWSTTGKSGWDSTAVTTASAK +>With spaces3 +MRGTRRGSGGWSGARYAGSVAASDRSDTRATTSAYRHTHAASGARTRAHARHARHRVTVHVVAGVCARV +>With spaces4 +MGVYKCYNKKKVGVAVKRYVTKKSYKTANSNADSYNCRKCCKAKGCCDRYWKTVKNDKCKKGVVVYY +>With spaces5 +MTVSNTVDYTVSGDRSKKDCNRTCGWRDVRCRTKGTGNSTVTVTKARTVDAVKKMKRTTNSDA +>With spaces6 +MVSTRKKNSVYTGRKYGSYHKDDKKYADNKNRKRYVYSVDDAKAKATAKSVD +>With spaces7 +MTGAGTSGKKNTTTHTKCRRCGKSYHTKKKVCSSCGGKSAKRRDYWSKAG +>With spaces8 +MTGSGTSGKKNKTVHVKCRRCGASYHKTKKVCASCGGKSAKRRDYAWKAG +>With spaces9 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>With spaces10 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>With spaces11 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>With spaces12 +MSANNDTGHAAKRTDSRHTCRRCDRGVGKYDNCRCRVARDMGKYS +>With spaces13 +MSSTDTGHATKRTGDCRCGRKGVGKYDWCRCRARGMGRKYK +>With spaces14 +MSTVTGKSRDGYSTTDANNVARHVYSGSHGKRSDVSA +>With spaces15 +MSTYTVRGSARDGKVDANNVARVYSDGSHNKRTTVAA +>With spaces16 +MSTVTGKSRDGYATTDANNVARHVSGSHGKRTDVS +>With spaces17 +MTNAGRSKACDCKRKVGCSRYK +>With spaces18 +MTNAGRSKACDCKRKVGCSRYK +>With spaces19 +MATDSWAAVDAAASRTSYSTS +>With spaces20 +MRVRVDRVGVVGGGTKKRGV +>With spaces21 +KRGAHGKMNGSVKTTMGSGR +>With spaces22 +MSSNATSTGNMNSNHRDSST +>With spaces23 +MAHSDNRDTADYGGAHAA +>With spaces24 +MMDGSDMDDWRDD |
| b |
| diff -r fae6527990af -r 8c4e2933a17a tool_dependencies.xml --- a/tool_dependencies.xml Thu May 21 03:58:09 2015 -0400 +++ b/tool_dependencies.xml Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -1,6 +1,6 @@ <?xml version="1.0"?> <tool_dependency> <package name="vsearch" version="1.1.3"> - <repository changeset_revision="c1fc77fac9fb" name="package_vsearch_1_1_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <repository changeset_revision="559454eab468" name="package_vsearch_1_1_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency> |
| b |
| diff -r fae6527990af -r 8c4e2933a17a vsearch_macros.xml --- a/vsearch_macros.xml Thu May 21 03:58:09 2015 -0400 +++ b/vsearch_macros.xml Wed Aug 26 13:34:22 2015 -0400 |
| b |
| @@ -31,7 +31,7 @@ </xml> <xml name="qmask"> <param name="qmask" type="select" label="Mask sequences" help="(--qmask)"> - <option value="no">No masking</option> + <option value="none">No masking</option> <option value="dust" selected="True">dust</option> <option value="soft">soft</option> </param> |