| Previous changeset 4:654b3a274ed5 (2021-07-07) |
|
Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/prinseq/ commit 34e8262534e22f0d391a81b06374744c4af8da24" |
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modified:
prinseq.xml |
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added:
test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq.gz test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq.gz test-data/prinseq_input_sequences.fastq.gz |
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removed:
test-data/prinseq_good_sequences.fastq test-data/prinseq_input_sequences.fastq |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 prinseq.xml --- a/prinseq.xml Wed Jul 07 09:22:27 2021 +0000 +++ b/prinseq.xml Sun Mar 20 10:51:09 2022 +0000 |
| [ |
| b'@@ -1,5 +1,8 @@\n-<tool id="prinseq" name="PRINSEQ" version="@TOOL_VERSION+galaxy1">\n+<tool id="prinseq" name="PRINSEQ" version="@TOOL_VERSION+galaxy2" profile="20.05">\n <description>to process quality of sequences</description>\n+ <xrefs>\n+ <xref type="bio.tools">prinseq</xref>\n+ </xrefs>\n <macros>\n <token name="@TOOL_VERSION">0.20.4</token>\n </macros>\n@@ -8,7 +11,6 @@\n </requirements>\n \n <stdio>\n- <exit_code range="1:" level="fatal" description="" />\n <regex match="ERROR"\n source="stderr"\n level="fatal"\n@@ -25,36 +27,57 @@\n ]]>\n </version_command>\n \n- <command>\n+ <command detect_errors="exit_code">\n <![CDATA[\n- mkdir tmp/\n+ mkdir tmp/ &&\n+\n+ #if $seq_type.seq_type_opt == "single"\n+ #set fwd = $seq_type.input_singles\n+ #set rev = None\n+ #else if $seq_type.seq_type_opt == "paired"\n+ #set fwd = $seq_type.input_mate1\n+ #set rev = $seq_type.input_mate2\n+ #else\n+ #set fwd = $seq_type.input_collection.forward\n+ #set rev = $seq_type.input_collection.reverse\n+ #end if\n \n- &&\n+ #if $rev and $fwd.ext != $rev.ext:\n+ >&2 echo \'Both pairs from your paired-end library need to be from the same filetype.\' &&\n+ exit 1;\n+ #end if\n+ \n+ #if $fwd.ext.endswith(".gz")\n+ gunzip -c \'$fwd\' > fwd.fastq &&\n+ #else\n+ ln -s \'$fwd\' fwd.fastq &&\n+ #end if\n+ \n+ #if $rev\n+ #if $rev.ext.endswith(".gz")\n+ gunzip -c \'$rev\' > rev.fastq &&\n+ #else\n+ ln -s \'$rev\' rev.fastq &&\n+ #end if\n+ #end if\n+\n+ ## create empty output files\n+ #if $seq_type.seq_type_opt == "single"\n+ touch tmp/good_sequences.fastq tmp/rejected_sequences.fastq &&\n+ #else\n+ touch tmp/good_sequences_1.fastq tmp/good_sequences_1_singletons.fastq tmp/rejected_sequences_1.fastq &&\n+ touch tmp/good_sequences_2.fastq tmp/good_sequences_2_singletons.fastq tmp/rejected_sequences_2.fastq &&\n+ #end if\n+\n \n prinseq-lite.pl\n- #if $seq_type.seq_type_opt == "single":\n- -fastq \'$seq_type.input_singles\'\n- #if $seq_type.input_singles.is_of_type(\'fastqillumina\'):\n- -phred64\n- #end if\n- #elif $seq_type.seq_type_opt == "paired":\n- -fastq \'$seq_type.input_mate1\'\n- -fastq2 \'$seq_type.input_mate2\'\n- #if $seq_type.input_mate1.ext != $seq_type.input_mate2.ext:\n- #import sys\n- #silent sys.stderr.write( \'Both pairs from your paired-end library need to be from the same filetype.\' )\n- #end if\n- #if $seq_type.input_mate1.is_of_type(\'fastqillumina\'):\n- -phred64\n- #end if\n- #else \n- -fastq \'$seq_type.input_collection.forward\'\n- -fastq2 \'$seq_type.input_collection.reverse\'\n- #if $seq_type.input_collection.forward.is_of_type(\'fastqillumina\'):\n- -phred64\n- #end if\n+ -fastq fwd.fastq\n+ #if $rev\n+ -fastq2 rev.fastq\n #end if\n-\n+ #if $fwd.ext.startswith(\'fastqillumina\'):\n+ -phred64\n+ #end if\n -out_good "tmp/good_sequences"\n -out_bad "tmp/rejected_sequences"\n \n@@ -226,9 +249,16 @@\n \n prinseq-graphs-noPCA.pl -i "tmp/stats.gd" -html_all -o stats_html\n *#\n+\n+ #if $fwd.ext.endswith(\'.gz\')\n+ && for f in tmp/*.fastq;\n+ do\n+ gzip -c \\$f > tmp_file &&\n+ mv tmp_file \\$f;\n+ done\n+ #end if\n ]]>\n </command>\n-\n <inputs>\n <conditional name="seq_type">\n <param nam'..b'treatments\' value="true"/>\n+ <param name="min_length_filter_treatment_value" value="50"/>\n+ <param name=\'apply_max_length_filter_treatments\' value="false" />\n+ <param name=\'apply_quality_filter_treatments\' value="true"/>\n+ <param name=\'apply_min_quality_filter_treatments\' value="false" />\n+ <param name=\'apply_max_quality_filter_treatments\' value="false"/>\n+ <param name=\'apply_mean_quality_filter_treatments\' value="true"/>\n+ <param name=\'apply_min_mean_quality_filter_treatments\' value="true"/>\n+ <param name="min_mean_quality_filter_treatment_value" value="15"/>\n+ <param name=\'apply_max_mean_quality_filter_treatments\' value="false"/>\n+ <param name=\'apply_base_content_filter_treatments\' value="true"/>\n+ <param name=\'apply_GC_perc_content_filter_treatments\' value="false"/>\n+ <param name=\'apply_N_number_content_filter_treatments\' value="false"/>\n+ <param name=\'apply_N_percentage_content_filter_treatments\' value="true"/>\n+ <param name="N_percentage_content_filter_treatment_value" value="2"/>\n+ <param name=\'apply_other_base_content_filter_treatments\' value="false"/>\n+ <param name=\'apply_complexity_filter_treatments\' value="false"/>\n+ <param name=\'apply_trimming_treatments\' value="true" />\n+ <param name=\'apply_length_trimming_treatments\' value="false"/>\n+ <param name=\'apply_position_trimming_treatments\' value="false"/>\n+ <param name=\'apply_tail_trimming_treatments\' value="false"/>\n+ <param name=\'apply_quality_trimming_treatments\' value="true"/>\n+ <param name=\'apply_left_quality_trimming_treatments\' value="false"/>\n+ <param name=\'apply_right_quality_trimming_treatments\' value="true" />\n+ <param name="right_quality_trimming_treatment_value" value="20"/>\n+ <param name="type_quality_trimming_treatments" value="min"/>\n+ <param name="rule_quality_trimming_treatments" value="lt" />\n+ <param name="window_quality_trimming_treatments" value="1"/>\n+ <param name="step_quality_trimming_treatments" value="1"/>\n+ <output_collection name="good_sequences_collection" type="paired">\n+ <element name="forward" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="605" delta="100"/>\n+ </assert_contents>\n+ </element>\n+ <element name="reverse" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="667" delta="100"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output_collection name="singletons_collection" type="paired">\n+ <element name="forward" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="720" delta="100"/>\n+ </assert_contents>\n+ </element>\n+ <element name="reverse" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="219" delta="100"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n+ <output_collection name="rejected_sequences_collection" type="paired">\n+ <element name="forward" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="0" delta="0"/>\n+ </assert_contents>\n+ </element>\n+ <element name="reverse" ftype="fastqsanger.gz">\n+ <assert_contents>\n+ <has_size value="718" delta="100"/>\n+ </assert_contents>\n+ </element>\n+ </output_collection>\n </test>\n </tests>\n \n' |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq Sun Mar 20 10:51:09 2022 +0000 |
| [ |
| @@ -0,0 +1,80 @@ +@seq.11990047/1 +ACGGCCGACTTGGATCACACTCTTGCAGGGCCATCAGGCACCAAAGGGATT ++ +hgffghhhhfhhchfhghhhhhhhggahh[chffhfhghhhhhhafehfeh +@seq.14614493/1 +AGAGGAGGACGAGGACGACTGGGAATCGTAGGGGGCTCCATGACACCTTCC ++ +hhgghehehghgghhaffffcggchghhhhgfhfhahghhhghhghhhhhe +@seq.24018133/1 +CGGGTGGATTTTCTGTGGGTTTGTTAAGTGGTCAGAAATTCTCAATTTTTT ++ +`aggggecfffa\\^Ua``\af`fffcffffafaffcffffec``fWfffe +@seq.10608403/1 +GTATGGCCAGAGGGCAGGGCCGAGGGGTGTGGGCGGGAGGCCCGGCCTGGC ++ +_dd_]bfggfgcg[egdbdbdXc`cfggaagdgggf^ggfdfggggggggg +@seq.10820209/1 +GTGCTGGCCCCAGTTTTCTAACCAGGTGTTGAATGAACTGGATGGACTCTG ++ +ghhccgfgghhhdhfhhghhhfffdf_hfhhhffhhhgdchhhhhgfhahh +@seq.1537155/1 +GGGAGTGTGCAGAGACTGGAGGGGATGACAGTCACCCTCTGTTTTCTGTGG ++ +aag`hhhhhgghhhhhhfhhchgfacchhhhah]hhdcafhhhhffachhg +@seq.25274725/1 +AGGGTGTGGGGCAAGGCAGTGAGTGAAGAGTTGGGATGAGTGAGTTAGGGC ++ +hhhhdhhhhhhffffcfdffff_fdffffffhchahhhhchgfhhfhfhhh +@seq.26326595/1 +GGGAAGGGGGTGCTTCTGCATGGGAAGCACAGACAGCGCTGCCTCTCCCTT ++ +Wbfdf]ddggggdgggdfdfWggdggf]fffadfffffVfffgfgfdgggg +@seq.28833653/1 +TGGGGCCAGGGGACTATGACACACCACTTGGCTTAGACTGAGGAGCTCTGT ++ +_cffafhdghhhhhhhhhhhghhaffhhhhdhfhhehhhhhhgghfhghhh +@seq.25049090/1 +AGGGCGAGATTGATTGTTAATTGCTAGCATGAACCGCGTGGGCTTCTCAGG ++ +fdffbfdddb[_afffacdggafdbc[fcfcgggfgffccfgagggggfgc +@seq.23476912/1 +GGCCTCTCCACCATGTGCTCCACCTCGTGCTGGACCTTAAGAGATACCAAT ++ +fgggggeggecfefffd^^aY]fdfcaggggfdefdggggggggggggggg +@seq.28059536/1 +GGGATGAGGAGAGGGCAGGAAGGCATTTCCTGGGTAGTGGAGTGCTGTGTT ++ +B_bbea[_V[WZVY`\Pacaaebecd]]fddbaed[decbe]fd`fggggg +@seq.13270875/1 +TGCCCCGAGTTTGTCAAGAATGTCCCAGTAACCAGGGGACACACAGTGAAG ++ +ffffafgagcggggfgfcfffccfcffg]ggggfgcgggggggggggggcf +@seq.2214586/1 +GTGGGAGGGGCTGAAGTGAGAGCCCAACTTGGAAGCTTTTACTCCTGGGAG ++ +gghghghhhhhhhhhhffefafhfhhhhhgghhhghhehhhhehhhhhhhh +@seq.31061198/1 +GAGGAGCTAGGGTTTCTCATAAAACTCCCTGATAGAAGACGACTTTTGATA ++ +cd\WaaaRcaacJdd[dff_f_ffcfddfff_dafffcd[cd\aW\eedcc +@seq.13835843/1 +GGGGAGGCAGAGGTTGCAGTGAGCCGAGATCATGTCACTGCACTCCAGGCT ++ +ggcgafggfgggggggfgggagggagggefgdffffdadeggggggggegg +@seq.13539256/1 +GTGGGGAAACCTAGAATTGCTGTAGAGAAAATGCCCTAGAGCAGCTCTAGA ++ +hfhhchfhhhfhghhhhhhhhghghhhgfhhhhhhhhhghhhhfhhhhfhh +@seq.5556605/1 +GGGATGAGGCCAAATCTTTCTGAATCTGAGATAGCCTCTCAGCCTATGCAT ++ +hfhchhchhhehhhhhhhhdhh_hghchgfhdhhhhhhhhhchhghhhhhh +@seq.32597077/1 +GAGAGACGGGGTTTCACCATGTTGGCCAGGATGGTCTTGATCTCTTGACCT ++ +dcba]fffcdfdWccf\``S_da_cdc_fdafggggfffcfcfcfddafff +@seq.20367385/1 +TTAAGTGCACTCAAATAATGTGATTTTATGAGGCTATAGGAGAAAAAAATT ++ +fdddZ`dc[cdadJ_ddScad[[^\^ddadad__daa^a^\]QY\T^ZZZY |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq.gz |
| b |
| Binary file test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R1.fastq.gz has changed |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq Sun Mar 20 10:51:09 2022 +0000 |
| [ |
| @@ -0,0 +1,80 @@ +@seq.11990047/2 +CCCGTGGGCAGAGCAAAGGAAGGGCACAGCGCCAGGCAGTGGTGCAGCTGC ++ +hfadfddd`]f[fa_fh]hhcagffhWhhhh]eeehhhha^hfhhhhghhf +@seq.14614493/2 +TCCCCTCCCAAGGAAGTAGGTCTGAGCAGCTTGTCCTGGCTGTGTCCATGT ++ +hhhhhhhhhehhhhehehhhghhehfhahhdhfdhhfhhhdf]f_ffbdfa +@seq.24018133/2 +TACCACTATTTTATGAACCAAGTATAACAAGATACTTGAAATGGAAACTAT ++ +fLffddhhhhag_gefafffhaefhfffffchffhhggahhhhRhhgccgh +@seq.10608403/2 +GGGACCTGCTGTTCCATCGGCTCTCTCTTGCTGATGGACAAGGGGGCATCA ++ +hefchhhfda`]]b]a^aLa^[Za^WdWb[faff]fd]defQacffdRd]f +@seq.10820209/2 +GCCCGGGGAAAACATGCATCACAGTTCATCTCGAGTCAGCAGGATTTTGAC ++ +ffcddeed]eaTfccfffffceee]ffdcdcee[efdaffffdSfhhdc]d +@seq.1537155/2 +TNNATCAATCAGCAGGNNNCGTGCACTCTCTTTGAGCCACCACAGAAAACA ++ +VBBVT^WZ^^I[]V]YBBBIVS[W[eeKceccaccUfaffff_afghg`gd +@seq.25274725/2 +GGCNCCTCCNTGCCCTNCTNAAAANNCAATCACAGCTCCCTAACAGTCCTG ++ +^UZB]]]Y]B][IS[[B]]BW][XBB\WaadddddhhghgffffaGVV[Se +@seq.26326595/2 +CATGCGTGCCCTGCTCGANATCCAATCACAGCTCCCTAACACTCCTGAATC ++ +^K^K_YT[YVe_eLe[INBTYZUV^S`babhacfhhccghhahghhdaghW +@seq.28833653/2 +CAGCAGCTATTTCCTGNTNACTCAANCAATGGCCCCATTTCCCTGGTGGAA ++ +fLdYfeYdddXbbabSBWBTY[[[]BdeedfffffghhhghdfgLfbfddg +@seq.25049090/2 +CTNCCCTTANTCCGAANGCNGCTCNNCTGATTGGTTAATTTTTGCGTAGCT ++ +VVBNZT[]]BSHZWS[BZHBTQPOBBZUZO]bZ^^hfehffff[fcfd_]g +@seq.23476912/2 +TNACTGATTNCTCTCCACTNTAGANNCTGAGAAGCCCACGCTGTTCATGCT ++ +`Ba_a^]^\Bbab\aa`b`BV]^VBBZV[Z`a^abffYfaa^e^dedbdd] +@seq.28059536/2 +CGTNTGACTCTAGACCNTNNGAAGCCCACGCGGTTCATTCTAGCAAGTAAC ++ +ZXZBY`\`]][dcKcUBVBBWNVV]ghchfdcc]ecccLa`edecf_cfdf +@seq.13270875/2 +TAGATTATCAACAGGGGAGAGATAGCATTTCCTGAAGGCTTCCTAGGTGCC ++ +eghggd_hhhfahhg\K^[[ffafchehg_ffWffhgceghhhhhffLfcY +@seq.2214586/2 +GNNTGCANANATAGANNTTNCCACACTGCCTTGCACAGGAGCACTGCGGGG ++ +VBBSITZBVBTTRHXBBZYBVUUVHH[QV[chhghacKaa_eeeeghgghg +@seq.31061198/2 +GNCGGAAAAAAAAATTNNNNAAAATNCGTCTGCTATCAGGGAGTTTTATGA ++ +VB[NV^\_]_`hfccXBBBBTUT[TBa_aLTRNQQaYcaeaKa^adcS\Vd +@seq.13539256/2 +CCTATTTTTTTTTTTTTTTTTGACACAGGTTCTCTGTCACCCAGCCTGGGG ++ +hhhhhhhhhhhghhhghhghfccWKVVYZRd[_[aZQYZ^``WT`[L^^Q\ +@seq.13835843/2 +TCCATCTTTTTTTTTTTTTTTTTGACACAGGTTCTCTGTCACCCAGCCTGG ++ +ghhhggffhhhhhhhhhhhghhh]fMPLPVW^^WXUZ\WXL[VVJY`\Wbb +@seq.5556605/2 +GCAGCTANGNCCATCNNNTTTGAAANCCAGATTTCGTTTTAAACCAGAGGA ++ +fLfLf]VBTBI]]]]BBB[^WW[]XBdede`eedeffhhehffhhhhahee +@seq.20367385/2 +ATTTGGCAGAGAAGCAAACACCAGTCGGAGAGCTGGGGCCCTCCCAGCCCT ++ +W_\_^W___WdcfceVIW[T^aa\[aaacaQYYSZY`KK````^[GaQZ\Y +@seq.17373919/2 +TTTTTGTTTTTTTTTTTTTTTGAGTCAGAATCTCGCTCTGTTGCCCAGGCT ++ +hgghhhhhhSfffffhgh`h__Wb`ZZZ_]PVPUSVYVQVaWWacaQa^BB |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq.gz |
| b |
| Binary file test-data/pairend_strandspecific_51mer_hg19_chr1_1-100000.R2.fastq.gz has changed |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/prinseq_good_sequences.fastq --- a/test-data/prinseq_good_sequences.fastq Wed Jul 07 09:22:27 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,13608 +0,0 @@\n-@HWI-M00234:263:000000000-ADM55:1:1101:7508:4067 1:N:0:ATCACG\n-GGTGCACTAGGATCGTAGTTGGCTACTTTCCCGTTTTCAATGTATACGCAAGGTACACGGTCAGCGGTAGCTGCCATAATGTAATGGTAGTCAAATCCTAAGTCTCCCAATGCACATGGCAGTGGAGCGTTCCAATCTTGTGTACCGGCTTTGTCTCCTAATCCCAAGTGCCATTTTCCGATAGCTCCGGTAGCATAACCGGTACTTTTGAACATATCCGCCATGGTATATTGTTCGGGACGGATAATCATGCCGGCATTTCCGGCAGCTACGTCTGTTCCTTTTTTGCGCCATGCATATTCTCCTG\n-+HWI-M00234:263:000000000-ADM55:1:1101:7508:4067 1:N:0:ATCACG\n-CCCCCGFGED8DDCAFDAEE9DFGGGG9CFAFFCC@@CFGFGGCGFGG>GGGFFGDGEFFEFG8>4GF@@FGCFGGCFCFCFFCFG>9=FFGFFGGGGFFFGGGGGFFF=FG<GGGF<F8C=@AC<GDCC:EGGGCCF<FFFFEFGFCGGGGGGD<EGFD;=EFFFGFGGGGAFGGGGGGC>>@DCFGGEFEGFFGF>AFFE>C<DFEFFFFEF8B4DGF9FFEFGGEFDE=GGEEECEFEFF<<FCCDGG<GGGCAGGCEGGFF9EC8FGDGGGGGFFCCDDF:FCGGGGEF9GEFGFCE>CCCB9\n-@HWI-M00234:263:000000000-ADM55:1:1101:26232:4161 1:N:0:ATCACG\n-CTCTTCTTAAGCTCGAACAGCTTCTTCAGTCTTACCTGCCATTTCATCTAAAATTTTTAAAGCTCGCTCTAAAACAGTAGTATCATCAATCATAACCAATCCACCATCTGGTCCAGGTTCCAAGTGAATCCCAACACTTTTCCCCTCCTTAAAATTGTGTCCACCGAAAAAATTTCTTACAGTGTCAACATTCAGTCCAAGTTCATCGGCTATTCTATGCATACTACCACTAGGCAATGAGTCTTTAATCTTACGTAATTCATTAAATGTTATTGTTCTCATATTCATAAATTTAATGGTTAATA\n-+HWI-M00234:263:000000000-ADM55:1:1101:26232:4161 1:N:0:ATCACG\n-CCCCCGGFGFFFGEGGGGCFGGGEGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCFGGF=EGFGGGGFGFGFGGGFAFDGCFGG=GFGGGFGFGFGGGGGGGGFGGGG?FFGGFDFFFGGGGGFGGGGGGCE=GC@FGGGGGGGFGGGGGGFBDFGGCGGGGFFFGGGGGGGGDFGGFFGFDGGGGFFFGGGGF>GFFFAGGFFFFFFGGGGGFEEFFFFFFEFE@GGGGGGGGGFGGGGGGGFGFFGGGGGGGGGGGFGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:1101:11727:5103 1:N:0:ATCACG\n-CTCCCGTATAGGATGGATCGAAAGCAATCGTCAGGAATCCACGTTCTGCCAATGTCTGCGCATACAAGCCCGAAGCTTGTTCCTTCACGGCACCAAATGGGCCACTGATGGCAATGGCAGGCAATTTACCCGTCACATTCTTGGGTACATACAAATCGGCGGCAAGTGTAATGCCGTAACGGTTGTGGAAAGTTATCTTTTTATGGTCTACTTTATCACTCTGTGGGAATGTCTTGTCCCACTCTTGAGTCAGATTCAAATTCTCTTCCATAAATTTATTATCATTATTAGGATTATTTTCTGTTGCAGACAAATGTCCTGCAGCACAAAGGCTAATAACCATCGCCGCACATATGTTTT\n-+HWI-M00234:263:000000000-ADM55:1:1101:11727:5103 1:N:0:ATCACG\n-CCCCCGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGEGGGEGGGGGGGEGEEGGGGGGGGGGGGGGGGGGGGGEFFGGGGGGGGGFGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFGG>GGGGGGGGGGGFGGGGF@GGGGGGGGGGGGDCFGFFGGFGFFEFFFGFAFGFCGDCFGGGGGGGGDEGGFFGGGGGGEFGGGGGGFGFGGFCGGFGGGFFFFAFGGGGGGGGGGGGGG@GGGGGGGFGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGFFGDGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:1101:15029:5173 1:N:0:ATCACG\n-GGCCTATTCTCTGCGGCCGCCTTTCGGCGGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTAACAATGCTTCTTCCGTCGGCCTTAGGATTCTCTCCTCATCCACCTGTGTCGGTTTACGGTACGGGTACAATATAAACAATAGCGGCTTTTCTTGACGGCCGGCTCATGGGCTTCCCTACTTTAGTTCGGTCCGCATCACGCCTTCGGATTGTTCAGCGGATTTGCCTACTGAACTCCTACCTCGCTTGCACCGGATTTTCCGTTTCCGGCTCCCACTTTCCTTCCGGGTCCCCACAGTTCTGTTATATTGCAGTACAGGAATCTCAACCTGTTGTCCATCGGCTACGGCTTTCGCCCTCGCCTTAGGCCCCGACTTACCCAGAGCAGATCAGCTTTACTCTGGAAACCTTAGATATTCGGCCAAAA\n-+HWI-M00234:263:000000000-ADM55:1:1101:15029:5173 1:N:0:ATCACG\n-CCCCCGGGGGGGGGGGGGGGGGGGGEGG7FECGFGGGGGEGGGGGEEGGGGGGGGGGGGGGGFGGGGGGGGGGGGFGGGCGGGGGGGGGGGGGGGFFGGGGGGGGGGFFG9FCGGGFGGGGGFFFDGGEECGGGGGGGGGGGEGGGGGGGGECEGEEGD>ACG>=98E59=CBDDD4D3BGF=FGGGDGFFFFFFFF6BDEFD<88>>DF:C7??3GBB7?:1:@FADC9<C>D>GFFAAF>7:7<4FGCD?AFGGC><9:?2<FECCA,@*;*CDCC@+E@EE>FFFGGDDCGE6C6@6+++GCCE,BCED@B9DFCFCFFEEF,9FGGE9GFF9DFGGGGFGGGGGGGCFFFGGGEGCGGFGFGGGGGGCDDGGGGFEGGGGGGGFGFEFEGGGGCGGGGGGGGCEAGFFGGGGCGGGEGFFCFGECGGCGGDGCC?CC\n-@HWI-M00234:263:000000000-ADM55:1:1101:11799:5476 1:N:0:ATCACG\n-CCTAAATTTTCGAGTATAAGCAGGACCGAAGCCACCAACTTATACCTTATCCTCTAAATTTTCGTAAGAGACATGAAGCGGATCTCTAACTATTCCCGATTTTACTGCACCACTTGATCAAACGCTTCGGAACAAGAGCTTTTGAGTGATGTCTCGTTTCCACCACTTTGGCAGAAATAAAGCTAATCTACTATGATTCGATTAAGCAGCAAGAGCATAATTTTCGTTGCCAGATAAAATTTTGAAAACTGGGATTATAGTGCCAATCAACCACGCACTGCATGCTTACATACCACTTAGCCACGCTGTCAAATCCAG\n-+HWI-M00234:263:000000000-ADM55:1:1101:11799:5476 1:N:0:ATCACG\n-CCCC<FFFGGF@FFFGFFGAGCCDGGGEFGGD;CFFGDGGGEGGCFF@DFGGC<CEGGGCEFGEGF@E@@,BFFGFGGGGG7+@AFEAEFDGEGGGGGFFEGGFGGGCEGEFDGFG=FGGGD>CED@DGFFGDCFECCCFDGGGDFGGGGF=DEEEDGFDEGFF@@,==+=FGEGFGG'..b'CFC@C,B@,F<F9GEF7DEF7F@@EEEEGEFC9GGGF<<<A8\n-@HWI-M00234:263:000000000-ADM55:1:2119:14032:23863 1:N:0:ATCACG\n-CGCCCTTCTTTTCCATATAGTTTTTGTAAGTAGCGATGGCTTGTTCGCCCTTACCGTCGCGGCTATACAGTTTAGCCAACTCCTTGTAGTTGTTGAGCTTAGAGGGGTCCTTAGCCAAAGCTTTTTCGTAAGCCGTGATAGCAGCGGGGAAATCCTGCTTTTCCTTAGCCAAAGCAGCAGCATATTCGTAGTCTACCGAAATGTAGTTGCTGTCAGCGTATTCAGGATCGCTGAGGTAAGCCGAAGCTTCTTCAGCCGTTTTGATAGCTGCATCGTAGTCCATAGCTTCGCCAATCTTGTTTACTTTG\n-+HWI-M00234:263:000000000-ADM55:1:2119:14032:23863 1:N:0:ATCACG\n-CCCCCFEFGFDGGCABGCCECEFEGGGFAFFEGGCGGFGGGGC<FCGGFGGGGGFFAF++@7FG7FF*C@FGGC?F4CFGCFEGGAFEEFF<FFGGG=?EFGGDGFFGGFGF<FDBGCF><FEFF<4@EFG@ECFGEFGCEFCC@BD9FECFGGFEEGCAGE?EFEGGGGGEFFGGG,DEEACAFCGFAFFECGGG=GGGFB?GGGGGFFDF@AEGGGGGE30B=BCGGFFFFF3F8FCECCFGGGFDGFE@F7EC>GF@FFE9FGGFC>@,;BAGGGGFECGD@@+FCDGGGFE@GCF<GGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:2119:16782:24009 1:N:0:ATCACG\n-CGGTAAATATCTTCTGACTCAACACTTTTGGCAGAAGTTCCGCTATCAGTTCGCCGACGGAAGGTTCCACAATGTAATCATTATTAAAACTGCGGGCATCCTCCGGTACATCTTCTGCCGCCTCCTGCGCTACTTGCGTCAGGTCAATGGGCAGATAATTCTCGCGGAGCAGCACCTGCGAACCCATCGATTTGAAGTGATGGTAAATCAGCTCCACATGGTCAATCTGCTTTTCCACAAACTCATGCATCAACTTCTCTGCCAGCTCATACGCTTCAACGTACGAAGGCTTGTCTGCCATCACCTGGTAGCTGCCTTGCGGCACATATCCCATTTTCTTG\n-+HWI-M00234:263:000000000-ADM55:1:2119:16782:24009 1:N:0:ATCACG\n-CCCCCGFFGAFGCGGAFG;EFGGGGGGGGFCCEFGGGFFGGGEGCFGGGDFGG@7@FGDFEGDGACFFEFGEDFDGGDEF9FD>EFGGFCEFDGFFFEGG=GFGF?CCEF?GG>GGGFDF>E7FGEF8FCCFGGEFFFGGGGGGGGFCFGFCFFGGGGGGGGGG<GGGGGGGGG>CFGGGEGDECFFGGFGGGFFFGFGGGGGGFFCACF=DCFGFFFGFGEBCGFGFFEFFFGGGGF9FACFEAFGFEAAFBFFEB<EFFGCGGFGGEFFCGFGFFFFGFECBFFC:1@CGFF@FFFGFFDEEFEC@CFCGFGF@GECCEFAFE<GGGGFF@@,GCC<CC\n-@HWI-M00234:263:000000000-ADM55:1:2119:11921:24379 1:N:0:ATCACG\n-CCTTTCGTTCTCGTTCCAAAATTTTATCCGGATATTCTTTTTCTCTTATACTTTTTTCTGTTCAGAAGTCAGATATCAATTTTCTCTTATTATTATAAATTATCAATTTAAAAAATTGTTCTCTACACACTCCGCTTACAAAACGCTCATAACCAAAATGTATAGTTGCTTTTTTAAAACTTTTTAACCTTCAAATAACAATTATTCTTGTTACCCTTTTCTGATCTGGTTCTTCATCTTATACTCTTGGCGAGTATATATGAAACTATGTAACAGATTAAAAAAATATCTTTTTGAAATTCCCTTTTTCTTCAGGAACTT\n-+HWI-M00234:263:000000000-ADM55:1:2119:11921:24379 1:N:0:ATCACG\n-BCCCCGGGGGGGGFGGGCD@FGFFGGFFGGDGGGFGAFFG9FFGDFGDGCAFGE9FGEGGGGAFBECFFEEEGGCCDGGGGGGGGGGGGFAFGFGGAE9DFE<FFFFFCGFFGB@EGGGGGE;GFCAB;CEFGGGDGFGGGFEG5GGGGGGGGDGF@F<FDAFFDDEFGGC=@GGGFGFGGGF(DFFGGDCGG<CG9<ECFDGG@FGFA9G<FFGBEFC,EAB7D@FF8:87FEDFF-FFFF0EE86FB6:0<55@4CECCEECC==EE4CEC@F>CC5CEAEGEFGCGCFFEC79DE<C,,,@C6,,6;,6,=,,A--@A\n-@HWI-M00234:263:000000000-ADM55:1:2119:17687:24444 1:N:0:ATCACG\n-CGGCAGGCGTTCTCGGCGTCGTGCACGAGGAACTTCTTGGACTTGATGATGCGCTTGCCGTAAACGGGGTGCATGGCATGCCGGGTCACACGGACAGAGATCGTCTTCTCCATCTTGTCGCTGATAACGATTCCGATTTTCATCTTGCGATGAGGGGTTTTCGCTTCCATTGAGCCTTACCTCCTTCCGGTGTTCACGTTCAGTCCCTGTTCTTTTTCGTGAACAATGGTAAGGACTCTCGCGATGGTCTTCTTGACCTCTTTGATTCTGCTGGTGTTCTTCAACTGGACAACAGCATTCTGGAAGCGCAGGTTAAAAAGCTCTTCTTTGGACTGGTCGTGCTTGTTCATGAGCTC\n-+HWI-M00234:263:000000000-ADM55:1:2119:17687:24444 1:N:0:ATCACG\n-CCCC@@FEGGGGGG7<778FFGFFGC<;CGGGGFEFC,;E8<CACFAD9FFCFGCFGF8@8BC@EF77FFBFEGCFG<<BAFACCFCGFGGG@>+CFFC:,?=:F8AD,BED=<,CECAC@FGE*E,A>+3@CD@7@=FEG7=;@CDEC)63@FGEC:BC@E>?CDEGFGG@FGDFECFGCEEEDCCCBEEDGGGF@A38@EB@FGFFEDFGCECCFAC?GEGF=@FEFGGFDEE:FF>69@9584<GFFF9F=F8DGF9GGFGGFFE<<6B6F<BFFCFF<FEC<::*,FEFFF<E<<CFFB,EDGEFFGGFC,<<,9EE<CFFF@FEC,GFEF:B@F8FFFFFFC,<FC,CCCA\n-@HWI-M00234:263:000000000-ADM55:1:2119:12876:24965 1:N:0:ATCACG\n-CTAAATTTTCGAGTATAAGCAGGACCGAAGCCACCAACTTATACCTTATCCTCTAAATTTTCGTAAGAGACATGAAGCGGATCTCTAACTATTCCCGATTTTACTGCACCACTTGATCAAACGCTTCGGAACAAGAGCTTTTGAGTGATGTCTCGTTTCCACCACTTTGGCAGAAATAAAGCTAATCTACTATGATTCGATTAAGCAGCAAGAGCATAATTTTCGTTGCCAGATAAAATTTTGAAAACTGGGATTATAGTGCCAATCAACCACGCACTGCATGCTTACATACCACTTAGCCACGCTGTCAAATCCAG\n-+HWI-M00234:263:000000000-ADM55:1:2119:12876:24965 1:N:0:ATCACG\n-CCCCCGGGGGGGGGGGGGFGGGGEGCFCGGGGEFGGGGFGGGGGDCFCFFFGGFFFDFEGGEGGGGGGGGGGGGGGFFGG>FFGGFFFGGGGDEFGEDFGAFEFFAFAFGGGGGD@BCEEEFGGE@BFFECEEGGGGGGFFFCGGGGFGCFFFAEFGFGGFGGGGGGGGGGFEDFF9AECFGFGGGGGGGGGFG@CFFGGGGGGFEGF?CFGFAGGFFFBGEFFCGFGGGDECFFGEGFFFFAGFGGGFFEGGF@GFFGFGCGEFEDGFFFF<GGGFCGFGGGGGFFFGGGGGFECDFEE7EEFGDFF9AADCCC@@\n' |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/prinseq_input_sequences.fastq --- a/test-data/prinseq_input_sequences.fastq Wed Jul 07 09:22:27 2021 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,13812 +0,0 @@\n-@HWI-M00234:263:000000000-ADM55:1:1101:7508:4067 1:N:0:ATCACG\n-GGTGCACTAGGATCGTAGTTGGCTACTTTCCCGTTTTCAATGTATACGCAAGGTACACGGTCAGCGGTAGCTGCCATAATGTAATGGTAGTCAAATCCTAAGTCTCCCAATGCACATGGCAGTGGAGCGTTCCAATCTTGTGTACCGGCTTTGTCTCCTAATCCCAAGTGCCATTTTCCGATAGCTCCGGTAGCATAACCGGTACTTTTGAACATATCCGCCATGGTATATTGTTCGGGACGGATAATCATGCCGGCATTTCCGGCAGCTACGTCTGTTCCTTTTTTGCGCCATGCATATTCTCCTG\n-+\n-CCCCCGFGED8DDCAFDAEE9DFGGGG9CFAFFCC@@CFGFGGCGFGG>GGGFFGDGEFFEFG8>4GF@@FGCFGGCFCFCFFCFG>9=FFGFFGGGGFFFGGGGGFFF=FG<GGGF<F8C=@AC<GDCC:EGGGCCF<FFFFEFGFCGGGGGGD<EGFD;=EFFFGFGGGGAFGGGGGGC>>@DCFGGEFEGFFGF>AFFE>C<DFEFFFFEF8B4DGF9FFEFGGEFDE=GGEEECEFEFF<<FCCDGG<GGGCAGGCEGGFF9EC8FGDGGGGGFFCCDDF:FCGGGGEF9GEFGFCE>CCCB9\n-@HWI-M00234:263:000000000-ADM55:1:1101:26232:4161 1:N:0:ATCACG\n-CTCTTCTTAAGCTCGAACAGCTTCTTCAGTCTTACCTGCCATTTCATCTAAAATTTTTAAAGCTCGCTCTAAAACAGTAGTATCATCAATCATAACCAATCCACCATCTGGTCCAGGTTCCAAGTGAATCCCAACACTTTTCCCCTCCTTAAAATTGTGTCCACCGAAAAAATTTCTTACAGTGTCAACATTCAGTCCAAGTTCATCGGCTATTCTATGCATACTACCACTAGGCAATGAGTCTTTAATCTTACGTAATTCATTAAATGTTATTGTTCTCATATTCATAAATTTAATGGTTAATA\n-+\n-CCCCCGGFGFFFGEGGGGCFGGGEGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCFGGF=EGFGGGGFGFGFGGGFAFDGCFGG=GFGGGFGFGFGGGGGGGGFGGGG?FFGGFDFFFGGGGGFGGGGGGCE=GC@FGGGGGGGFGGGGGGFBDFGGCGGGGFFFGGGGGGGGDFGGFFGFDGGGGFFFGGGGF>GFFFAGGFFFFFFGGGGGFEEFFFFFFEFE@GGGGGGGGGFGGGGGGGFGFFGGGGGGGGGGGFGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:1101:11727:5103 1:N:0:ATCACG\n-CTCCCGTATAGGATGGATCGAAAGCAATCGTCAGGAATCCACGTTCTGCCAATGTCTGCGCATACAAGCCCGAAGCTTGTTCCTTCACGGCACCAAATGGGCCACTGATGGCAATGGCAGGCAATTTACCCGTCACATTCTTGGGTACATACAAATCGGCGGCAAGTGTAATGCCGTAACGGTTGTGGAAAGTTATCTTTTTATGGTCTACTTTATCACTCTGTGGGAATGTCTTGTCCCACTCTTGAGTCAGATTCAAATTCTCTTCCATAAATTTATTATCATTATTAGGATTATTTTCTGTTGCAGACAAATGTCCTGCAGCACAAAGGCTAATAACCATCGCCGCACATATGTTTT\n-+\n-CCCCCGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGEGGGEGGGGGGGEGEEGGGGGGGGGGGGGGGGGGGGGEFFGGGGGGGGGFGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFGG>GGGGGGGGGGGFGGGGF@GGGGGGGGGGGGDCFGFFGGFGFFEFFFGFAFGFCGDCFGGGGGGGGDEGGFFGGGGGGEFGGGGGGFGFGGFCGGFGGGFFFFAFGGGGGGGGGGGGGG@GGGGGGGFGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGFFGDGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:1101:15029:5173 1:N:0:ATCACG\n-GGCCTATTCTCTGCGGCCGCCTTTCGGCGGCACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTAACAATGCTTCTTCCGTCGGCCTTAGGATTCTCTCCTCATCCACCTGTGTCGGTTTACGGTACGGGTACAATATAAACAATAGCGGCTTTTCTTGACGGCCGGCTCATGGGCTTCCCTACTTTAGTTCGGTCCGCATCACGCCTTCGGATTGTTCAGCGGATTTGCCTACTGAACTCCTACCTCGCTTGCACCGGATTTTCCGTTTCCGGCTCCCACTTTCCTTCCGGGTCCCCACAGTTCTGTTATATTGCAGTACAGGAATCTCAACCTGTTGTCCATCGGCTACGGCTTTCGCCCTCGCCTTAGGCCCCGACTTACCCAGAGCAGATCAGCTTTACTCTGGAAACCTTAGATATTCGGCCAAAA\n-+\n-CCCCCGGGGGGGGGGGGGGGGGGGGEGG7FECGFGGGGGEGGGGGEEGGGGGGGGGGGGGGGFGGGGGGGGGGGGFGGGCGGGGGGGGGGGGGGGFFGGGGGGGGGGFFG9FCGGGFGGGGGFFFDGGEECGGGGGGGGGGGEGGGGGGGGECEGEEGD>ACG>=98E59=CBDDD4D3BGF=FGGGDGFFFFFFFF6BDEFD<88>>DF:C7??3GBB7?:1:@FADC9<C>D>GFFAAF>7:7<4FGCD?AFGGC><9:?2<FECCA,@*;*CDCC@+E@EE>FFFGGDDCGE6C6@6+++GCCE,BCED@B9DFCFCFFEEF,9FGGE9GFF9DFGGGGFGGGGGGGCFFFGGGEGCGGFGFGGGGGGCDDGGGGFEGGGGGGGFGFEFEGGGGCGGGGGGGGCEAGFFGGGGCGGGEGFFCFGECGGCGGDGCC?CC\n-@HWI-M00234:263:000000000-ADM55:1:1101:11799:5476 1:N:0:ATCACG\n-CCTAAATTTTCGAGTATAAGCAGGACCGAAGCCACCAACTTATACCTTATCCTCTAAATTTTCGTAAGAGACATGAAGCGGATCTCTAACTATTCCCGATTTTACTGCACCACTTGATCAAACGCTTCGGAACAAGAGCTTTTGAGTGATGTCTCGTTTCCACCACTTTGGCAGAAATAAAGCTAATCTACTATGATTCGATTAAGCAGCAAGAGCATAATTTTCGTTGCCAGATAAAATTTTGAAAACTGGGATTATAGTGCCAATCAACCACGCACTGCATGCTTACATACCACTTAGCCACGCTGTCAAATCCAG\n-+\n-CCCC<FFFGGF@FFFGFFGAGCCDGGGEFGGD;CFFGDGGGEGGCFF@DFGGC<CEGGGCEFGEGF@E@@,BFFGFGGGGG7+@AFEAEFDGEGGGGGFFEGGFGGGCEGEFDGFG=FGGGD>CED@DGFFGDCFECCCFDGGGDFGGGGF=DEEEDGFDEGFF@@,==+=FGEGFGGGGGGGGGGFFGFFGFFFFFFFGGGFGFFFEFFFFA8A@GGGFFEGGGFEGEAFGFFGGCEAE>CGFFFF<F@CFFGEAGFEDEGDEEGGGGFCFFCE>CCGC?GDGFFGGGGGGFEFF,FDGDGFGFFE,GDEE<<CCC@\n-@HWI-M00234:263:000000000-ADM55:1:1101:11348:5668 1:N:0:ATCACG\n-GCCTAAATTTTCGTGCAGCGGCAGAACCAAAGCCATCAACCGTTGCCTTATCCTCTAAATTTTCACCCGCGCCACGAGGCTGACACGAACTATCCCCG'..b'GFGF@FGE7FCCEFGCGFGFGFFG@CFFGCGGFFGAF9FDDFDF<B<<FEEEGGC9B?FFCGF,BEBF<?DEFEGGECC@FGFFGGGF=F?DGGGECFGFGEGGGG;7A3@,AD7FGFF997CD>=@DDDC87DCEE;535$F@785CCFF@<ACE:=9E<CFGGGGEDCFCGGGCFGFDFE9;@:3(CCB9FGFF@FCECEF<DEFFFFFGFCCAFEA=<?EA<ECGFGFFFA(EFA?AC:EC><?7CGF@CAF?B:C+FEF:GGEECAEAC,<CFE@CCFECFFCFE<@FFF@+E@9FCCF8C:FCEACFC@C,B@,F<F9GEF7DEF7F@@EEEEGEFC9GGGF<<<A8\n-@HWI-M00234:263:000000000-ADM55:1:2119:14032:23863 1:N:0:ATCACG\n-CGCCCTTCTTTTCCATATAGTTTTTGTAAGTAGCGATGGCTTGTTCGCCCTTACCGTCGCGGCTATACAGTTTAGCCAACTCCTTGTAGTTGTTGAGCTTAGAGGGGTCCTTAGCCAAAGCTTTTTCGTAAGCCGTGATAGCAGCGGGGAAATCCTGCTTTTCCTTAGCCAAAGCAGCAGCATATTCGTAGTCTACCGAAATGTAGTTGCTGTCAGCGTATTCAGGATCGCTGAGGTAAGCCGAAGCTTCTTCAGCCGTTTTGATAGCTGCATCGTAGTCCATAGCTTCGCCAATCTTGTTTACTTTG\n-+\n-CCCCCFEFGFDGGCABGCCECEFEGGGFAFFEGGCGGFGGGGC<FCGGFGGGGGFFAF++@7FG7FF*C@FGGC?F4CFGCFEGGAFEEFF<FFGGG=?EFGGDGFFGGFGF<FDBGCF><FEFF<4@EFG@ECFGEFGCEFCC@BD9FECFGGFEEGCAGE?EFEGGGGGEFFGGG,DEEACAFCGFAFFECGGG=GGGFB?GGGGGFFDF@AEGGGGGE30B=BCGGFFFFF3F8FCECCFGGGFDGFE@F7EC>GF@FFE9FGGFC>@,;BAGGGGFECGD@@+FCDGGGFE@GCF<GGGCCCCC\n-@HWI-M00234:263:000000000-ADM55:1:2119:16782:24009 1:N:0:ATCACG\n-CGGTAAATATCTTCTGACTCAACACTTTTGGCAGAAGTTCCGCTATCAGTTCGCCGACGGAAGGTTCCACAATGTAATCATTATTAAAACTGCGGGCATCCTCCGGTACATCTTCTGCCGCCTCCTGCGCTACTTGCGTCAGGTCAATGGGCAGATAATTCTCGCGGAGCAGCACCTGCGAACCCATCGATTTGAAGTGATGGTAAATCAGCTCCACATGGTCAATCTGCTTTTCCACAAACTCATGCATCAACTTCTCTGCCAGCTCATACGCTTCAACGTACGAAGGCTTGTCTGCCATCACCTGGTAGCTGCCTTGCGGCACATATCCCATTTTCTTG\n-+\n-CCCCCGFFGAFGCGGAFG;EFGGGGGGGGFCCEFGGGFFGGGEGCFGGGDFGG@7@FGDFEGDGACFFEFGEDFDGGDEF9FD>EFGGFCEFDGFFFEGG=GFGF?CCEF?GG>GGGFDF>E7FGEF8FCCFGGEFFFGGGGGGGGFCFGFCFFGGGGGGGGGG<GGGGGGGGG>CFGGGEGDECFFGGFGGGFFFGFGGGGGGFFCACF=DCFGFFFGFGEBCGFGFFEFFFGGGGF9FACFEAFGFEAAFBFFEB<EFFGCGGFGGEFFCGFGFFFFGFECBFFC:1@CGFF@FFFGFFDEEFEC@CFCGFGF@GECCEFAFE<GGGGFF@@,GCC<CC\n-@HWI-M00234:263:000000000-ADM55:1:2119:11921:24379 1:N:0:ATCACG\n-CCTTTCGTTCTCGTTCCAAAATTTTATCCGGATATTCTTTTTCTCTTATACTTTTTTCTGTTCAGAAGTCAGATATCAATTTTCTCTTATTATTATAAATTATCAATTTAAAAAATTGTTCTCTACACACTCCGCTTACAAAACGCTCATAACCAAAATGTATAGTTGCTTTTTTAAAACTTTTTAACCTTCAAATAACAATTATTCTTGTTACCCTTTTCTGATCTGGTTCTTCATCTTATACTCTTGGCGAGTATATATGAAACTATGTAACAGATTAAAAAAATATCTTTTTGAAATTCCCTTTTTCTTCAGGAACTT\n-+\n-BCCCCGGGGGGGGFGGGCD@FGFFGGFFGGDGGGFGAFFG9FFGDFGDGCAFGE9FGEGGGGAFBECFFEEEGGCCDGGGGGGGGGGGGFAFGFGGAE9DFE<FFFFFCGFFGB@EGGGGGE;GFCAB;CEFGGGDGFGGGFEG5GGGGGGGGDGF@F<FDAFFDDEFGGC=@GGGFGFGGGF(DFFGGDCGG<CG9<ECFDGG@FGFA9G<FFGBEFC,EAB7D@FF8:87FEDFF-FFFF0EE86FB6:0<55@4CECCEECC==EE4CEC@F>CC5CEAEGEFGCGCFFEC79DE<C,,,@C6,,6;,6,=,,A--@A\n-@HWI-M00234:263:000000000-ADM55:1:2119:17687:24444 1:N:0:ATCACG\n-CGGCAGGCGTTCTCGGCGTCGTGCACGAGGAACTTCTTGGACTTGATGATGCGCTTGCCGTAAACGGGGTGCATGGCATGCCGGGTCACACGGACAGAGATCGTCTTCTCCATCTTGTCGCTGATAACGATTCCGATTTTCATCTTGCGATGAGGGGTTTTCGCTTCCATTGAGCCTTACCTCCTTCCGGTGTTCACGTTCAGTCCCTGTTCTTTTTCGTGAACAATGGTAAGGACTCTCGCGATGGTCTTCTTGACCTCTTTGATTCTGCTGGTGTTCTTCAACTGGACAACAGCATTCTGGAAGCGCAGGTTAAAAAGCTCTTCTTTGGACTGGTCGTGCTTGTTCATGAGCTC\n-+\n-CCCC@@FEGGGGGG7<778FFGFFGC<;CGGGGFEFC,;E8<CACFAD9FFCFGCFGF8@8BC@EF77FFBFEGCFG<<BAFACCFCGFGGG@>+CFFC:,?=:F8AD,BED=<,CECAC@FGE*E,A>+3@CD@7@=FEG7=;@CDEC)63@FGEC:BC@E>?CDEGFGG@FGDFECFGCEEEDCCCBEEDGGGF@A38@EB@FGFFEDFGCECCFAC?GEGF=@FEFGGFDEE:FF>69@9584<GFFF9F=F8DGF9GGFGGFFE<<6B6F<BFFCFF<FEC<::*,FEFFF<E<<CFFB,EDGEFFGGFC,<<,9EE<CFFF@FEC,GFEF:B@F8FFFFFFC,<FC,CCCA\n-@HWI-M00234:263:000000000-ADM55:1:2119:12876:24965 1:N:0:ATCACG\n-CTAAATTTTCGAGTATAAGCAGGACCGAAGCCACCAACTTATACCTTATCCTCTAAATTTTCGTAAGAGACATGAAGCGGATCTCTAACTATTCCCGATTTTACTGCACCACTTGATCAAACGCTTCGGAACAAGAGCTTTTGAGTGATGTCTCGTTTCCACCACTTTGGCAGAAATAAAGCTAATCTACTATGATTCGATTAAGCAGCAAGAGCATAATTTTCGTTGCCAGATAAAATTTTGAAAACTGGGATTATAGTGCCAATCAACCACGCACTGCATGCTTACATACCACTTAGCCACGCTGTCAAATCCAG\n-+\n-CCCCCGGGGGGGGGGGGGFGGGGEGCFCGGGGEFGGGGFGGGGGDCFCFFFGGFFFDFEGGEGGGGGGGGGGGGGGFFGG>FFGGFFFGGGGDEFGEDFGAFEFFAFAFGGGGGD@BCEEEFGGE@BFFECEEGGGGGGFFFCGGGGFGCFFFAEFGFGGFGGGGGGGGGGFEDFF9AECFGFGGGGGGGGGFG@CFFGGGGGGFEGF?CFGFAGGFFFBGEFFCGFGGGDECFFGEGFFFFAGFGGGFFEGGF@GFFGFGCGEFEDGFFFF<GGGFCGFGGGGGFFFGGGGGFECDFEE7EEFGDFF9AADCCC@@\n' |
| b |
| diff -r 654b3a274ed5 -r 1ee282794de3 test-data/prinseq_input_sequences.fastq.gz |
| b |
| Binary file test-data/prinseq_input_sequences.fastq.gz has changed |