| Previous changeset 4:3ce74eab308b (2019-12-04) Next changeset 6:0e93176640ac (2021-09-13) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/abyss commit 52c73f875aef9c4692b886e1a50d8124875e7dcb" |
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modified:
abyss-pe.xml |
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added:
test-data/assembly_sample-R1.fastq.gz test-data/assembly_sample-R2.fastq.gz |
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removed:
test-data/assembly_sample-R1.fastq test-data/assembly_sample-R2.fastq |
| b |
| diff -r 3ce74eab308b -r fa5259cc561b abyss-pe.xml --- a/abyss-pe.xml Wed Dec 04 08:30:29 2019 -0500 +++ b/abyss-pe.xml Fri Mar 19 21:37:30 2021 +0000 |
| b |
| @@ -1,4 +1,4 @@ -<tool id="abyss-pe" name="ABySS" version="@TOOL_VERSION@"> +<tool id="abyss-pe" name="ABySS" version="@TOOL_VERSION@+galaxy1"> <description>de novo sequence assembler</description> <macros> <token name="@TOOL_VERSION@">2.2.3</token> @@ -10,14 +10,14 @@ <option value="paired_il">1 dataset of interleaved reads</option> </param> <when value="paired"> - <param name="reads1" type="data" format="fasta,fastq,fastqsanger,fastqillumina" label="Paired-end reads 1" /> - <param name="reads2" type="data" format="fasta,fastq,fastqsanger,fastqillumina" label="Paired-end reads 2" /> + <param name="reads1" type="data" format="fasta,fastq,fastq.gz" label="Paired-end reads 1" /> + <param name="reads2" type="data" format="fasta,fastq,fastq.gz" label="Paired-end reads 2" /> </when> <when value="paired_collection"> <param name="reads_coll" type="data_collection" collection_type="paired" format="fasta,fastq,fastqsanger,fastqillumina" label="Paired-end reads collection" /> </when> <when value="paired_il"> - <param name="reads_il" type="data" format="fasta,fastq,fastqsanger,fastqillumina" label="Interleaved paired-end reads" /> + <param name="reads_il" type="data" format="fasta,fastq,fastq.gz" label="Interleaved paired-end reads" /> </when> </conditional> </xml> @@ -149,11 +149,11 @@ <repeat name="lib_repeat" title="Paired-end library" help="(lib)"> <expand macro="reads_conditional" /> </repeat> - <param name="se_reads" argument="se" type="data" multiple="true" optional="true" format="fasta,fastq,fastqsanger,fastqillumina" label="Single-end reads" /> + <param name="se_reads" argument="se" type="data" multiple="true" optional="true" format="fasta,fastq,fastq.gz" label="Single-end reads" /> <repeat name="mp_repeat" title="Mate-pair library" help="The mate-pair libraries are used only for scaffolding and do not contribute towards the consensus sequence (mp)"> <expand macro="reads_conditional" /> </repeat> - <param name="long_seqs" argument="long" type="data" multiple="true" optional="true" format="fasta,fastq,fastqsanger,fastqillumina" label="Long sequences" help="Long sequence libraries are used only for rescaffolding and do not contribute towards the consensus sequence" /> + <param name="long_seqs" argument="long" type="data" multiple="true" optional="true" format="fasta,fastq,fastq.gz" label="Long sequences" help="Long sequence libraries are used only for rescaffolding and do not contribute towards the consensus sequence" /> <param argument="k" type="integer" value="41" label="K-mer length (in bp)" help="The length of a k-mer (when -K is not set) or the span of a k-mer pair (when K is set)" /> <param argument="K" type="integer" value="" optional="true" label="The length (in bp) of a single k-mer in a k-mer pair" help="Optional" /> <param argument="q" type="integer" value="3" max="40" optional="true" label="Minimum base quality when trimming" help="Trim bases from the ends of reads whose quality is less than this value" /> @@ -197,8 +197,8 @@ <repeat name="lib_repeat"> <conditional name="reads"> <param name="reads_selector" value="paired" /> - <param name="reads1" ftype="fastqsanger" value="assembly_sample-R1.fastq" /> - <param name="reads2" ftype="fastqsanger" value="assembly_sample-R2.fastq" /> + <param name="reads1" ftype="fastqsanger" value="assembly_sample-R1.fastq.gz" /> + <param name="reads2" ftype="fastqsanger" value="assembly_sample-R2.fastq.gz" /> </conditional> </repeat> <param name="k" value="50" /> @@ -211,7 +211,7 @@ <output name="stats" file="abyss-stats1.tab" /> </test> <test> - <param name="se_reads" ftype="fastqsanger" value="assembly_sample-R1.fastq,assembly_sample-R2.fastq" /> + <param name="se_reads" ftype="fastqsanger" value="assembly_sample-R1.fastq.gz,assembly_sample-R2.fastq.gz" /> <param name="k" value="50" /> <output name="unitigs" file="abyss-unitigs2.fa" /> <output name="bubbles" file="empty_file.fasta" /> @@ -220,8 +220,8 @@ <output name="stats" file="abyss-stats2.tab" /> </test> <test> - <param name="se_reads" ftype="fastqsanger" value="assembly_sample-R1.fastq,assembly_sample-R2.fastq" /> - <param name="long_seqs" ftype="fastqsanger" value="assembly_sample-R2.fastq" /> + <param name="se_reads" ftype="fastqsanger" value="assembly_sample-R1.fastq.gz,assembly_sample-R2.fastq.gz" /> + <param name="long_seqs" ftype="fastqsanger" value="assembly_sample-R2.fastq.gz" /> <param name="k" value="50" /> <output name="unitigs" file="abyss-unitigs3.fa" /> <output name="long_scaffolds" file="abyss-long-scaffolds3.fa" /> |
| b |
| diff -r 3ce74eab308b -r fa5259cc561b test-data/assembly_sample-R1.fastq --- a/test-data/assembly_sample-R1.fastq Wed Dec 04 08:30:29 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,604 +0,0 @@\n-@HWI-ST745_0097:7:1101:1001:1000#0/1\n-GAAAAACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTT\n-+HWI-ST745_0097:7:1101:1001:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1002:1000#0/1\n-AAAAACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTA\n-+HWI-ST745_0097:7:1101:1002:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1003:1000#0/1\n-AAAACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAG\n-+HWI-ST745_0097:7:1101:1003:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1004:1000#0/1\n-AAACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGT\n-+HWI-ST745_0097:7:1101:1004:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1005:1000#0/1\n-AACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTG\n-+HWI-ST745_0097:7:1101:1005:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1006:1000#0/1\n-ACGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGG\n-+HWI-ST745_0097:7:1101:1006:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1007:1000#0/1\n-CGCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGT\n-+HWI-ST745_0097:7:1101:1007:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1008:1000#0/1\n-GCGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTG\n-+HWI-ST745_0097:7:1101:1008:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1009:1000#0/1\n-CGCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGA\n-+HWI-ST745_0097:7:1101:1009:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1010:1000#0/1\n-GCTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAG\n-+HWI-ST745_0097:7:1101:1010:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1011:1000#0/1\n-CTTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGT\n-+HWI-ST745_0097:7:1101:1011:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1012:1000#0/1\n-TTGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTC\n-+HWI-ST745_0097:7:1101:1012:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1013:1000#0/1\n-TGCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCG\n-+HWI-ST745_0097:7:1101:1013:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1014:1000#0/1\n-GCAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGT\n-+HWI-ST745_0097:7:1101:1014:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1015:1000#0/1\n-CAGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTC\n-+HWI-ST745_0097:7:1101:1015:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1016:1000#0/1\n-AGATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCG\n-+HWI-ST745_0097:7:1101:1016:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1017:1000#0/1\n-GATGGGTCGCAGGTTACTTCCTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGG\n-+HWI-ST745_0097:7:1101:1017:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1018:1000#0/1'..b'IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1135:1000#0/1\n-GACTCCGCACCGCCGTGTTCTTCGGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCA\n-+HWI-ST745_0097:7:1101:1135:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1136:1000#0/1\n-CCGTGTTCTTCGGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATC\n-+HWI-ST745_0097:7:1101:1136:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1137:1000#0/1\n-GTGTTCTTCGGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCG\n-+HWI-ST745_0097:7:1101:1137:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1138:1000#0/1\n-TTCTTCGGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCA\n-+HWI-ST745_0097:7:1101:1138:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1139:1000#0/1\n-GGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACT\n-+HWI-ST745_0097:7:1101:1139:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1140:1000#0/1\n-TTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCC\n-+HWI-ST745_0097:7:1101:1140:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1142:1000#0/1\n-CCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGA\n-+HWI-ST745_0097:7:1101:1142:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1141:1000#0/1\n-CGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAA\n-+HWI-ST745_0097:7:1101:1141:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1145:1000#0/1\n-AACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGT\n-+HWI-ST745_0097:7:1101:1145:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1143:1000#0/1\n-ACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTT\n-+HWI-ST745_0097:7:1101:1143:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1144:1000#0/1\n-CTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTG\n-+HWI-ST745_0097:7:1101:1144:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1146:1000#0/1\n-CTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTG\n-+HWI-ST745_0097:7:1101:1146:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1147:1000#0/1\n-TGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGC\n-+HWI-ST745_0097:7:1101:1147:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1148:1000#0/1\n-CCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGCCGAAGCGGCGTTCCACC\n-+HWI-ST745_0097:7:1101:1148:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1149:1000#0/1\n-CATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGCCGAAGCGGCGTTCCACCGCTCCCA\n-+HWI-ST745_0097:7:1101:1149:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1150:1000#0/1\n-ATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGCCGAAGCGGCGTTCCACCGCTCCCAG\n-+HWI-ST745_0097:7:1101:1150:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1151:1000#0/1\n-TGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGCCGAAGCGGCGTTCCACCGCTCCCAGC\n-+HWI-ST745_0097:7:1101:1151:1000#0/1\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n' |
| b |
| diff -r 3ce74eab308b -r fa5259cc561b test-data/assembly_sample-R1.fastq.gz |
| b |
| Binary file test-data/assembly_sample-R1.fastq.gz has changed |
| b |
| diff -r 3ce74eab308b -r fa5259cc561b test-data/assembly_sample-R2.fastq --- a/test-data/assembly_sample-R2.fastq Wed Dec 04 08:30:29 2019 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 |
| b |
| b'@@ -1,604 +0,0 @@\n-@HWI-ST745_0097:7:1101:1001:1000#0/2\n-GCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGATTGTC\n-+HWI-ST745_0097:7:1101:1001:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1002:1000#0/2\n-TTAGCGTAGCGCCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAA\n-+HWI-ST745_0097:7:1101:1002:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1003:1000#0/2\n-ATGTCTGGAAATATAGGGGCAAATCCAGGGTTCTTGTCCCATGATGTTCAAAACTGTCAATATCCTGCATTGTTAG\n-+HWI-ST745_0097:7:1101:1003:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1004:1000#0/2\n-CAATATCCTGCATTGTTAGCGTAGCGCCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGC\n-+HWI-ST745_0097:7:1101:1004:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1005:1000#0/2\n-CCTGCATTGTTAGCGTAGCGCCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCC\n-+HWI-ST745_0097:7:1101:1005:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1006:1000#0/2\n-CCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGATTGTCGTATCTCCATTCAGATATACCGACGACTC\n-+HWI-ST745_0097:7:1101:1006:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1007:1000#0/2\n-AAATATAGGGGCAAATCCAGGGTTCTTGTCCCATGATGTTCAAAACTGTCAATATCCTGCATTGTTAGCGTAGCGC\n-+HWI-ST745_0097:7:1101:1007:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1008:1000#0/2\n-TGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGATTGT\n-+HWI-ST745_0097:7:1101:1008:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1009:1000#0/2\n-GCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGATTGTC\n-+HWI-ST745_0097:7:1101:1009:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1010:1000#0/2\n-GGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGGG\n-+HWI-ST745_0097:7:1101:1010:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1011:1000#0/2\n-TTGTTAGCGTAGCGCCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGG\n-+HWI-ST745_0097:7:1101:1011:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1012:1000#0/2\n-CTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGATTGTCGTATCTCCATTCAGATA\n-+HWI-ST745_0097:7:1101:1012:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1013:1000#0/2\n-CAGGGTTCTTGTCCCATGATGTTCAAAACTGTCAATATCCTGCATTGTTAGCGTAGCGCCACTGCCAATTTCCAGC\n-+HWI-ST745_0097:7:1101:1013:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1014:1000#0/2\n-CCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGAGGGAATTCTCCGCTGA\n-+HWI-ST745_0097:7:1101:1014:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1015:1000#0/2\n-CTGGAAATATAGGGGCAAATCCAGGGTTCTTGTCCCATGATGTTCAAAACTGTCAATATCCTGCATTGTTAGCGTA\n-+HWI-ST745_0097:7:1101:1015:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1016:1000#0/2\n-GTCTGGAAATATAGGGGCAAATCCAGGGTTCTTGTCCCATGATGTTCAAAACTGTCAATATCCTGCATTGTTAGCG\n-+HWI-ST745_0097:7:1101:1016:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1017:1000#0/2\n-CATTGTTAGCGTAGCGCCACTGCCAATTTCCAGCAAAGCTTTATCCTGTACCCGAATAACCCCGGCAAACCCCAGA\n-+HWI-ST745_0097:7:1101:1017:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1018:1000#0/2'..b'IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1135:1000#0/2\n-ACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCAT\n-+HWI-ST745_0097:7:1101:1135:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1136:1000#0/2\n-TTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTAC\n-+HWI-ST745_0097:7:1101:1136:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1137:1000#0/2\n-GTGAAACAGTACAGGACGTCATGCTGGGAGCGGTGGAACGCCGCTTCGGCAACGATCTTCCGTCGTCTCCAGTGGA\n-+HWI-ST745_0097:7:1101:1137:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1138:1000#0/2\n-CTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAGCGGTGGAACGCCGCTTCGGCAACGATCT\n-+HWI-ST745_0097:7:1101:1138:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1139:1000#0/2\n-GCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCT\n-+HWI-ST745_0097:7:1101:1139:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1140:1000#0/2\n-CGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAGCGG\n-+HWI-ST745_0097:7:1101:1140:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1142:1000#0/2\n-GAGACTGCGTGTCACGTTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTC\n-+HWI-ST745_0097:7:1101:1142:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1141:1000#0/2\n-TGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAGCGGTG\n-+HWI-ST745_0097:7:1101:1141:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1145:1000#0/2\n-GATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAG\n-+HWI-ST745_0097:7:1101:1145:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1143:1000#0/2\n-AGAGAGACTGCGTGTCACGTTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGC\n-+HWI-ST745_0097:7:1101:1143:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1144:1000#0/2\n-TGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAGCGGTGGAACGCCGCTTCG\n-+HWI-ST745_0097:7:1101:1144:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1146:1000#0/2\n-TGTCACGTTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAA\n-+HWI-ST745_0097:7:1101:1146:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1147:1000#0/2\n-CTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAGCGGTGGAACGCC\n-+HWI-ST745_0097:7:1101:1147:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1148:1000#0/2\n-GATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATGCTGGGAG\n-+HWI-ST745_0097:7:1101:1148:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1149:1000#0/2\n-CTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCGGCGGCTTCAACAGTGAAACAGTACAGGACGTCATG\n-+HWI-ST745_0097:7:1101:1149:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1150:1000#0/2\n-TAACGGAGAGAGACTGCGTGTCACGTTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACC\n-+HWI-ST745_0097:7:1101:1150:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n-@HWI-ST745_0097:7:1101:1151:1000#0/2\n-AACGGAGAGAGACTGCGTGTCACGTTCGCGCTGGACTGCTGTGATCGTGAGGCACTGCACTGGGCGGTCACTACCG\n-+HWI-ST745_0097:7:1101:1151:1000#0/2\n-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII\n' |
| b |
| diff -r 3ce74eab308b -r fa5259cc561b test-data/assembly_sample-R2.fastq.gz |
| b |
| Binary file test-data/assembly_sample-R2.fastq.gz has changed |