| Previous changeset 2:156e0da5b917 (2018-11-29) Next changeset 4:3ee0ef312022 (2020-02-05) |
|
Commit message:
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/flye commit 9de56f311ae694ec8c636b24be7815f92521ca96 |
|
modified:
flye.xml |
|
added:
test-data/result1_assembly_graph.gfa test-data/result2_assembly_graph.gfa test-data/result3_assembly_graph.gfa |
| b |
| diff -r 156e0da5b917 -r 1ce9b1d72ec3 flye.xml --- a/flye.xml Thu Nov 29 04:34:34 2018 -0500 +++ b/flye.xml Sun Dec 02 12:53:28 2018 -0500 |
| [ |
| @@ -14,27 +14,27 @@ #set $ext = 'fastq' #elif $input.is_of_type('fastqsanger.gz'): #set $ext = 'fastq.gz' - #elif $input.is_of_type('fasta.gz'): + #elif $input.is_of_type('fasta.gz'): #set $ext = 'fasta.gz' - #elif $input.is_of_type('fasta'): + #elif $input.is_of_type('fasta'): #set $ext = 'fasta' #end if ln -s '$input' ./input_${counter}.${ext} && #end for - + flye $mode #for $counter, $input in enumerate($inputs): ./input_${counter}.$ext #end for - -o out_dir + -o out_dir -g '$g' -t \${GALAXY_SLOTS:-4} -i $i #if $m: -m '$m' - #end if + #end if 2>&1 ]]></command> <inputs> @@ -47,44 +47,44 @@ <option value="--subassemblies">high-quality contig-like input</option> </param> <param argument="-g" type="text" label="estimated genome size (for example, 5m or 2.6g)"> - <validator type="regex" message="Genome size must be a float or integer, optionally followed by the a unit prefix (kmg)">^([0-9]*[.])?[0-9]+[kmg]?$</validator> + <validator type="regex" message="Genome size must be a float or integer, optionally followed by the a unit prefix (kmg)">^([0-9]*[.])?[0-9]+[kmg]?$</validator> </param> <param argument="-i" type="integer" value="1" label="number of polishing iterations" /> <param argument="-m" type="integer" optional="true" label="minimum overlap between reads (default: auto)" /> </inputs> <outputs> - <data name="contigs" format="fasta" from_work_dir="out_dir/contigs.fasta" label="${tool.name} on ${on_string} (contigs)"/> <data name="scaffolds" format="fasta" from_work_dir="out_dir/scaffolds.fasta" label="${tool.name} on ${on_string} (scaffolds)"/> <data name="assembly_info" format="tabular" from_work_dir="out_dir/assembly_info.txt" label="${tool.name} on ${on_string} (assembly_info)"/> - <data name="assembly_graph" format="graph_dot" from_work_dir="out_dir/assembly_graph.dot" label="${tool.name} on ${on_string} (assembly_graph)"/> + <data name="assembly_graph" format="graph_dot" from_work_dir="out_dir/assembly_graph.gv" label="${tool.name} on ${on_string} (assembly_graph)"/> + <data name="assembly_gfa" format="txt" from_work_dir="out_dir/assembly_graph.gfa" label="${tool.name} on ${on_string} (Graphical Fragment Assembly)"/> <data name="flye_log" format="txt" from_work_dir="out_dir/flye.log" label="${tool.name} on ${on_string} (log)"/> </outputs> <tests> - <test> + <test> <param name="inputs" ftype="fasta" value="nanopore.fasta"/> <param name="mode" value="--pacbio-raw"/> <param name="g" value="10000"/> - <output name="contigs" file="result1_contigs.fasta" ftype="fasta" compare="sim_size"/> <output name="scaffolds" file="result1_scaffolds.fasta" ftype="fasta" compare="sim_size"/> <output name="assembly_info" file="result1_assembly_info.txt" ftype="tabular" compare="sim_size"/> - <output name="assembly_graph" file="result1_assembly_graph.dot" ftype="graph_dot" compare="sim_size"/> + <output name="assembly_graph" file="result1_assembly_graph.dot" ftype="graph_dot" compare="sim_size"/> + <output name="assembly_gfa" file="result1_assembly_graph.gfa" ftype="txt" compare="sim_size"/> </test> - <test> + <test> <param name="inputs" ftype="fasta" value="nanopore.fasta"/> <param name="mode" value="--nano-raw"/> <param name="g" value="10000"/> - <output name="contigs" file="result2_contigs.fasta" ftype="fasta" compare="sim_size"/> <output name="scaffolds" file="result2_scaffolds.fasta" ftype="fasta" compare="sim_size"/> <output name="assembly_info" file="result2_assembly_info.txt" ftype="tabular" compare="sim_size"/> - <output name="assembly_graph" file="result2_assembly_graph.dot" ftype="graph_dot" compare="sim_size"/> + <output name="assembly_graph" file="result2_assembly_graph.dot" ftype="graph_dot" compare="sim_size"/> + <output name="assembly_gfa" file="result2_assembly_graph.gfa" ftype="txt" compare="sim_size"/> </test> - <test> + <test> <param name="inputs" ftype="fasta" value="nanopore.fasta"/> <param name="mode" value="--pacbio-raw"/> <param name="g" value="10000"/> <param name="i" value="2"/> - <output name="contigs" file="result3_contigs.fasta" ftype="fasta" compare="sim_size"/> <output name="scaffolds" file="result3_scaffolds.fasta" ftype="fasta" compare="sim_size"/> + <output name="assembly_gfa" file="result2_assembly_graph.gfa" ftype="txt" compare="sim_size"/> </test> </tests> <help><![CDATA[ |
| b |
| diff -r 156e0da5b917 -r 1ce9b1d72ec3 test-data/result1_assembly_graph.gfa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/result1_assembly_graph.gfa Sun Dec 02 12:53:28 2018 -0500 |
| b |
| b'@@ -0,0 +1,2 @@\n+H\tVN:Z:1.0\n+S\tcontig_1\tTTCGTTATTACTTCGTTCAGTTACGTATTGCTCGATTTTTTGGCATAAAGTCTAAAATTGAGCTACAGACTGAAACTTTGTACATTTTGTTTTTCAAACCACAAATAGTTTGCACACACAAAATTTGAAATCTGTGCGACCACTACTCCCTCTCTTGCCTCCCATATTAACTACTGGTATGACTCAGGATTCAACGAAATTTCATTTTTTTTTTTTTTTTTTTAAATAGAGATGTGTACATTATTGTTTTAAAAATAATCGCCCTCTTCTTCTTCTAGCTCAACATTATAATTTTTCGAATCTGAACTCGAATCAGAATCAGATGTGAGTCAAATATTTTTGTCTGATGGATCAGGTTTAAGACTAGACTGTATTTCAAAAGACTTATTACCTGCCTTCGGAAGTGGTTTTTTTCCTATTTTTTTCTCTCTCTTTCTTTTAAACATATTGTTGATAATAGTGGGTCGAGGAATCAATAGCTCTGTGGAAAATATCATCATCGTATTGATCAAACTATTTTTCCTTGCATGTGATAATCGGTCCTTTTGCTTCAGGATTTATTCCGGGCTTCATAGCATTTCGCCTAGGCATCAAATTAGACAACGCCGAATTATTGATTTGATAGCCGTGGACCAATTACTTTATGGATCGTTAGTGACATAGGATACCATGGATACGTTTACATATATATAATTGAAAAGTTATATCGCAAAAGAACGAAATTTGTCGGAATTTATAAAATAGTTGGATGATATTGCTATTAAAATAATGTGAAACTTTTTTTCCAAAGATTTTCGTTAAAGCTGGTTATCGACGAGAATTTGGTACTTGCAGCTCTTCTTGCCGTATTACCATCATTGCTATTACCGCTGCCATTCTGCTTCGGCATGCTTACTCGAAGGCCCATTTCTCTCCACATTTCCTCCTGGATATATTTTTTCGAATACTCATTTTTTTAACCTTGTCCTCTCCTTTTATATGCCACTTTTTTTATCTCAGCTCTGTATGATACGTTTTAAAACAAATTCAAAAAAACGGATCAGGCATGTAAATCGGACTTACCCCAAATTGTAAAGCAGCACTTTTGGTACAAAAGGTTTCTGAACTAAAATTTGAAATTTTCAACATTTGTGTTGGGCTGACTCCACAGATCGGACAACGTGGAGTAGATTTACAGTGTCTGTTAATACGTTTAGGACTTTTCCATCTATAAGTGTCATGTGCATTTCATAGCTAAATTCTATGTCACGATTTTCATCATGTTAAGTGAATGGCGTAAGATTTTTTTTTAATTTGATTATCTAACTGATTTTTCCATCATTATGTGGACAGCAGTTTCCTTTATCAACTCAATTTTAGGAGTCTGCAAAATCCAGATGGACTGCGGTGCTCTGTTTATCCAGATATGCCGATTAAACGAATCTATAATTTATGGGTATGACAGAAGTTACAAATAAAGATTGATCAGAAATTGGTGTGCCAAGTGCTTCCAGTTTCATATTTCTGCTTGTAAGCACTATGACCAGTTGTCCCATCAAATCCGTAGCTGCAAATTAATTTGATTTAAAGATATCTGGAAATTCGCCGAATACATCAGATTGCAGCAATTAATCTTTGCGCTTGTATGATCAAAGAGATTTTGTAATAGCACTTGAGCAGTGTTTCCATTACTTCACCCTCTGGTCGGCACTGTAATTTAGCTTCGATCACTTCATTATACGGCGGATATATATCGCCGTTATGGCTGTTAAAAGCCTGGTGCTTATATATTGCTGTTTTGTCAGCGTGTTTTCCAGGAGATAAGCTAGAGCTGTCTGGTGAAAGAGTTGGTTTTGGCATTGAACATCCTCGATTCGCTTGGAAATTCTGGTGTTTTAAAGTTTCTTTAAGAACAAAGGCAACGTCCTCTTGCATTCTTTTCTAGCAGCACAGTTGCTGCATGAATCAAAAGACTTGTGTCGTGGTCACTTTCACTTGCCAGATTCGATGCCAGTTTCCTTTTAATCTTTCTCCTGCATTTTGGTAAGATAAGTTTCGGCGTCCCATTTGCTGGGGTATATTGGAGTTTTCAAAATCACTAATCACTTTTCTAGTAGAAAATAATTGCTTCAGAGGACGATATATTGACGCATAAAAGAAATTTAGGCTTTATGCCACGGAGTCTGGACCACAGTGCGCTGCTACGCTACGCTTGGTGCCCAACAAGACATCAGATTAGTTCATTTCGACCCATATAATTGAAGATAAGGATAGTGTTCGATGCATTTTCCTAAACTAATCCGTAAACTAAAAATTACGTTATTTACGTTAAAGAAATCTCTTATTGAGTAATTTTTGCTTGTCCACGACAAAATAAAGGAAAAAATAATTAAGATAGGAATGCAAATGTTGGTATTTAAGTTTACATTACTACTTTTGTTTGTTTGGCTTACTTTACATTAGAATTATGTATGATTAATTGATATTTAAACTATAAAATTCTTTAAATTAAGAGACCTAGATATACGATTCATTAAGGCAAGGTATTTTTAGCACACTAGTTTAGGAATATCTGACTTTATATATGCACGTGTGTTATTATTATTTTGTTTGTTCACGCTATGCCGTACTTACGCACTTTCCATCGATGTCAGCAGGCCTGAATGCGATGATGATCTGCTGTATGATATTAATATATAAATTGGGAGAAAATCACATATATGTGTTTGTCAGATCTCCCACAGAGTTAAAGCTAGAATTAGAATCGTAGAGGTTTATAGTAAATATTTTTTGAGGCAAAATTAACACATATATGAAGAAACTATTCCAAGATACTCAAGACTGGACACGATCATTCGTGTTGTGGCTACTTCAGGTTCGCAGCATACGCAGTCGGCGCAAGAACTCAGCAAACCAGCTCTGCGATCTTCACTTGGTTAGCAGAAGAAAGGACAAGCCAACACCGCTGCACGCGGTGGGTGCTCTGATGCAAGCAGTTGTGAGATCTTTCTGCGATCGATGAAGCCACCGTAAATTTTACACGTGGTCAAAGTTAGGGCGAAGAACAATGCCGATGCAACTAAGACTTCTACTTCACGATTTAAACTATCACTTGGCGGTATTTGCCTTGAAAAGCTCTTATCTGGTCTACACGATGCTCGTGGATTTATAATCAGGGACTTTGCATCCGATTAAACTGCCTCGATCACGCCTTCCGAAAGAGAGCGGTGGTATGCAAATCAAGTGTAATGACCGTAGTTTGCTGACAATCCAGAGCTCAGGAATTTTTGTGGTACATTTTATATTCAGTTTTGCCAGGATTTGGATTTGGCTATAATGGTTTGTTACCAAATGAGTGCGATAGCGCACATATAAGGTGCCATTTTGGCTCGACTCCACGACCTCCTCCGGTCGAGGTCGTAGCTGAAGCTACCTGGCTCAGTAACTTCTCTAAAGGGTCAGCTAGCATGTCTACGATGCTGTGCACCCAGGCACTACTATGTTTGGAGGGACTTGGGTACAGCAGCCTCCACTGGCCCCTACCTGTTTCGCCAGCGGCTACGTCTCTTCGATGAGCAGTGCAACAAATCGATTGGTATTTGACTGCGGCTACTCAGTATCGCTGACCTCATCGACTTTGTGCCAGTTTAACCGTCTTTCTTATGGGGCACGGTGAACTGTATAATTTCGCCGGCCTCTAGGGATTCGTTGTCCTTACATTATCTCTTTCAATTTCATTGGAGCTGGAGGTGGAGCTGCCAATGGCCGATATATTTCATGGAATTTTCGAGTACCTTATGTGCTGGATTTCGATGATGTGGGTGCGGCGGGTGGCGGCTCCTTACGCTTCCTATGGATTATTTTTAGGCACAAGCGTATGCCAACGAATTTCTTCTTAGAAAGTGGACGAAAGCCGCTTTATCCATTTCCGTGGAGTCTGCCATGGTAATTGCGTGCAAGAGCACGTGTCGTTTAAGTTT'..b'GTCAGAGCGATCGACTGACTTGCGGTAGGGGCTCGGTGGCCGAATTCGAGGCATCTGAAGCATCTTATTGGGCGGACGTCTTGGGCTATGCGGCAACGCGACCATCCCACAGTTACAACGCCCGGTTGATGACCGCAATGGCATCGTTCGCGCACATTAGCACAGAGGCTATCTGGGTCCCGTCACGCATCCTGCGAAGGCCTCTTACATCCTCTGGTTCCAGGCGGATGCCCTGAAATTGGGAGACCAGGAATTATGAGGTCCTGAGCCGTCGTTGTCTCGTCTAGTCCGCTGCAGATTAGCGCAGTCCTATGCGCCCAGTGCGAACCGAAGCAATCTCTTTGAGCGTCGCTTCTAGCTCATTTTTAAAGCTGGGGATGACCTCCGAGGCTTTGCCTTCTAATTCAGAAGTAGTTCTCCCTGTTGCGTCCTCCTTATTTTACGCACGTGCTTGCCGAATTCGGTCAGACTCGGTTCTGCTTTCATCTTCCGAAGCATATCCGAGTACGTAACCTCACCCGTTTTTTCAGGATTAGCGCCTCAGGTTTTTTGCGCAGGCGCTTGGGCTTCACCTTAGCCCATTCCTCGTCCTTGTTAGCGTCCTTGGCGACAGACGCATAACTTTCCGGTTTGGAGTCAGCCGTCGTGGGTAACGCCTTACCGGTGGATTTCGCGGCAGATCGATGGTTGTCCGTTTTGCGGACCTGCACATTCGGTAATGCCTGTCTGGGTAGCGCCACCTGGCTACGCTTTGTTTTTTCTGCCTCAGTCTGTGTGGCAGTACTCTCGTGGGGGGGCTTCTTGTTGATACCCTCCTGTAACTCAATCGCTCTGTTATTGAGCGCCGATAGGTCCACTAGCACGCCCCTATCCTCGCTGGTTACGTGACGCCTAGTCTCGAACGAGGATAGAATGGCGGTGATCTTGGCTTTCATCATGTCCAGGATGCCCTGCAGGTCCTCATTCTGGAGCGTCGTGGTCAGTTCTGGCGAGCGATGCGGCGATCCTGATGGGACTTCGCTCCCGCCCTTTGGGCCGGCACGCTGATGAAATCCATTGTCTTCAGGCTTGTGGCTGTCGTGGAGACTGTAGTGGCCAGAGTCTCCACCTCCACAGCTGCACTGCAGTCGCTAGCTTTCGGCGGCGGGGGGGCCTGCTTGCTCACCTCCCACTCCCTGGATTGGGGTTCCGACTCCTCTTATGGGATCTCGATAGCCTACCACTCCTCCTAAACGGGTCGTTGGGGTCGGGGCACTGCCCCCTGTGCTGTCCATCAGATATAAAGGGGGACTTTGGCTTGTTGGTCCCCAGCGCTCCGTGGGAAATAGAACTAGCTTCAGTTCTTAGGTTATATTTAAAATTTTTGTTCAACTTAATTAGTTCAAATTTGAATTTGAATTCGAATTTCGCGCCCAACGAGCGCGCGGCCGAATGACGATCGCACCGCTGATCTGGCAACGCCAGTCTTACCAGCTCGTCGACTGCGAAAGGTTGGCAATGCTATCAGCTGTATTGTCTGATGCAGCTGATCTGATTTATTACCAGTTTACTGGATCACTCGTGAATTCGGAACGACACCGTGACGCTCAGAACGCGGCGCAAACCCCAGAGTGGATTTGCGGGTTTATGTTGCAGTTTACGGCTGACCGGACTCGTATATGACGAAATTCGCGCAGCGCAGCAAAAGACGTGCGAAATACGCGGGAACTCGATTCACTATCATGCCATAATGTGTGTTGGTATTAGTGTGTGTGTGGAGTGAAGTAAGTCTCCAAAGTGTGTTTGATTGCGGGTAGACTGGGTTCTACGCATTATTGCAACGTTCGTTCTGCACATTAAGTTTTGATCGCCGAAGAAGACAGACATGCCTCGCTCCCGAATTAAACGCGTCAGAAAACGTTACGACGACGGGTGAGAGTGATGCTGAGTATAAAAGTGATTCAGATCCCACATACTTAATGCAAATAAGTTTATTTTCAACTTTTTCTATTGTAAAATGATATTTTATGTCTATGTGCTTAATTCTCTTGTGGCAAGTTGGGTTATTTGCAATACTAATGCAACCTGGACCTTTTAATTCTAGTTTAATTTCTACCAATAAAAACTTGAGCCATAAGGCTTCTCTAAAACCTTCAAATAAGGCCATGTAATCTGTCTTCGGTGGATGAAGCTGCAACTGATTTTTGCTTCATTGTGTTCCATGAAATTAAACAACTTTCAAACAGTTTAAATAAATATCCAGTAGTACTTCGTCTGTCTGTCTCATTTCCTGCCCAATCAGAATCAGCATGTCCAATAAGAATAATACTAAACTGTACACTTTTTCAATCTCAAATCAACAGTTCCTTTTAAATGCCTTAAAACTCTTTTAAGGCATAGCCATAATTCCTTATTGTTGTTATTCGAATATCGACTTAAAATACTTATTGATCAAGTTTCTACATGGTGCCTCACATGATTCTACAGATTGTAGAGCCTCATAGTTTAGTTTGCTTGGAAGAGGTGTACTAACTGCATTACAGTCTTCCATATTAAACTTTTCAACACATTCTTTATATATGCAGATTAACTGAGACATATCTGACTTTTATTTCTATCAATTTTAATTCCGATAAAATATCGAACTTCCTTCAAATAAGTCATTTTAAATTTATTTAGAAGGTATGATTTAAATTTAGACCTAGTTTCGGATTTACTAGTGGCAATTATTACATCGTCCACATATAACAAAATATAGATATTATCTAAGAATTTTCCTTTATCTAATATAAATTAGATTTTCAAATACAACATCTTTTCGCACATTTTCAAAACTTCAAACCAGCATCTTGCAGCTTGTTTACTGCATATTTTGCTTTATTAAGCTTTGCATTCTGCATTCTCATCGCAATATGGCAACCCTTTTGGAACCTTCATGTAGATTTCATCTTGCTCCAAGAATGCTGTTCTCACATCCATACGATGGACTTGTAAATTTTATTGATTTGAAAGAGCCAAAAAACCGAAACTGGAAATTCGTGCAGCTGGTGCAAATGTCTCATCATAATCAGTCACATATTCTTGTGTAAACCTCGTGCTACTAGCCGTGCTTTATGCTACTAAGTTTCCAAACTCATCTTGTTAGTGCTACTAAAAACCCATTTACAATCTACTATGCTTTTATTATTAGGCTTCTGCACCAAACTCCACGTTTTATTTTCTGAATGTGAACCAAGTTCATCTTGTATAGCTTTTCCCAAAAGATCTGTCATCCACGAAATTCAATTTCATCAAATCTATTGGGAATATCAATATCTATCGATAGTTTAGGTTTATCTTTGTCCAAGTTACGGGGTTGGACTGTCACCGCTCTCCGCTCCCTTTACGCTCTCCGCTCTTCACCACAGAGTCTCCAAGGAGTCTCCGCTGCGCTTGGAAGAGCCTAACTAGATAGAATAAGCACCAGTGTCAAAACTCATTTCGCAGAATAAATATACGCCCGGTCGCGCTCAATTACGAAAGTCTAGTGTTCGCTTTTCTTCGAGATTCTTTTCAGCATATTTGGAAATTCCAGGACAGCACCCTACAACCCATCATTTTTTATTTCTTTCACTGCGTCCTGATTTCTTACTCACTTTTGCTATCATTTTATTTCATCACCAGTTTCTTTAACTGGATCGGCATTCTTTAGACATGTGGAATTTTACTATGTTGTACTTTTTCTAGAATCAACAGATTCATCATTTTCCACCATTGGAAAATCGAGGACTCTACATTATCTTTATTAAAAAGAATCATAAATACTTTTATGTTGAACCTTCGAGTCTTCTTCATGTTTTAATTCGTTTGTCATCTCGATCACCGAATCGTATCTCGCTTTCAAGGCCTCATCTCTTTTGAGACGCTGCTCATTTCTTAAGAACTGAGCCAACTGCGAAACAGACCTAGAATGCCTAGCCCGGAACCGATATGTTCGGGGTCGCTTGAAAAGGCAGAGTAACGACATATTTG\tdp:i:29\n' |
| b |
| diff -r 156e0da5b917 -r 1ce9b1d72ec3 test-data/result2_assembly_graph.gfa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/result2_assembly_graph.gfa Sun Dec 02 12:53:28 2018 -0500 |
| b |
| b'@@ -0,0 +1,2 @@\n+H\tVN:Z:1.0\n+S\tcontig_1\tTTCGTTATTACTTCGTTCAGTTACGTATTGCTCGATTTTTTGGCATAAAGTCTAAAATTGAGCTACAGACTGAAACTTTGTACATTTTGTTTTTCAAACCACAAATAGTTTGCACACACAAAATTTGAAATCTGTGCGACCACTACTCCCTCTCTTGCCTCCCATATTAACTACTGGTATGACTCAGGATTCAACGAAATTTCATTTTTTTTTTTTTTTTTTTAAATAGAGATGTGTACATTATTGTTTTAAAAATAATCGCCCTCTTCTTCTTCTAGCTCAACATTATAATTTTTCGAATCTGAACTCGAATCAGAATCAGATGTGAGTCAAATATTTTTGTCTGATGGATCAGGTTTAAGACTAGACTGTATTTCAAAAGACTTATTACCTGCCTTCGGAAGTGGTTTTTTTCCTATTTTTTTCTCTCTCTTTCTTTTAAACATATTGTTGATAATAGTGGGTCGAGGAATCAATAGCTCTGTGGAAAATATCATCATCGTATTGATCAAACTATTTTTCCTTGCATGTGATAATCGGTCCTTTTGCTTCAGGATTTATTCCGGGCTTCATAGCATTTCGCCTAGGCATCAAATTAGACAACGCCGAATTATTGATTTGATAGCCGTGGACCAATTACTTTATGGATCGTTAGTGACATAGGATACCATGGATACGTTTACATATATATAATTGAAAAGTTATATCGCAAAAGAACGAAATTTGTCGGAATTTATAAAATAGTTGGATGATATTGCTATTAAAATAATGTGAAACTTTTTTTCCAAAGATTTTCGTTAAAGCTGGTTATCGACGAGAATTTGGTACTTGCAGCTCTTCTTGCCGTATTACCATCATTGCTATTACCGCTGCCATTCTGCTTCGGCATGCTTACTCGAAGGCCCATTTCTCTCCACATTTCCTCCTGGATATATTTTTTCGAATACTCATTTTTTTAACCTTGTCCTCTCCTTTTATATGCCACTTTTTTTATCTCAGCTCTGTATGATACGTTTTAAAACAAATTCAAAAAAACGGATCAGGCATGTAAATCGGACTTACCCCAAATTGTAAAGCAGCACTTTTGGTACAAAAGGTTTCTGAACTAAAATTTGAAATTTTCAACATTTGTGTTGGGCTGACTCCACAGATCGGACAACGTGGAGTAGATTTACAGTGTCTGTTAATACGTTTAGGACTTTTCCATCTATAAGTGTCATGTGCATTTCATAGCTAAATTCTATGTCACGATTTTCATCATGTTAAGTGAATGGCGTAAGATTTTTTTTTAATTTGATTATCTAACTGATTTTTCCATCATTATGTGGACAGCAGTTTCCTTTATCAACTCAATTTTAGGAGTCTGCAAAATCCAGATGGACTGCGGTGCTCTGTTTATCCAGATATGCCGATTAAACGAATCTATAATTTATGGGTATGACAGAAGTTACAAATAAAGATTGATCAGAAATTGGTGTGCCAAGTGCTTCCAGTTTCATATTTCTGCTTGTAAGCACTATGACCAGTTGTCCCATCAAATCCGTAGCTGCAAATTAATTTGATTTAAAGATATCTGGAAATTCGCCGAATACATCAGATTGCAGCAATTAATCTTTGCGCTTGTATGATCAAAGAGATTTTGTAATAGCACTTGAGCAGTGTTTCCATTACTTCACCCTCTGGTCGGCACTGTAATTTAGCTTCGATCACTTCATTATACGGCGGATATATATCGCCGTTATGGCTGTTAAAAGCCTGGTGCTTATATATTGCTGTTTTGTCAGCGTGTTTTCCAGGAGATAAGCTAGAGCTGTCTGGTGAAAGAGTTGGTTTTGGCATTGAACATCCTCGATTCGCTTGGAAATTCTGGTGTTTTAAAGTTTCTTTAAGAACAAAGGCAACGTCCTCTTGCATTCTTTTCTAGCAGCACAGTTGCTGCATGAATCAAAAGACTTGTGTCGTGGTCACTTTCACTTGCCAGATTCGATGCCAGTTTCCTTTTAATCTTTCTCCTGCATTTTGGTAAGATAAGTTTCGGCGTCCCATTTGCTGGGGTATATTGGAGTTTTCAAAATCACTAATCACTTTTCTAGTAGAAAATAATTGCTTCAGAGGACGATATATTGACGCATAAAAGAAATTTAGGCTTTATGCCACGGATGTCTGGACCACAGTGCGCTGCTACGCTACGCTTGGTGCCCAACAAGACATCAGATTAGTTCATTTCGACCCATATAATTGAAGATAAGGATAGTAGTTCGATGCATTTTCCTAAACTAATCCGTAAACTAAAAATTACGTTATTTACGTTAAAGAAATCTCTTATTGAGTAATTTTTGCTTGTCCACGACAAAATAAAGGAAAAAATAATTAAGATAGGAATGCAAATGTTGGTATTTAAGTTTACATTACTACTTTTGTTTGTTTGGCTTACTTTACATTAGAATTATGTATGATTAATTGATATTTAAACTATAAAATTCTTTAAATTAAGAGACCTAGATATACGATTCATTAAGGCAAGGTATTTTTAGCACACTAGTTTAGGAATATCTGACTTTATATATGCACGTGTGTTATTATTATTTTGTTTGTTCACGCTATGCCGTACTTACGCACTTTCCATCGATGTCAGCAGGCCTGAATGCGATGATGATCTGCTGTATGATATTAATATATAAATTGGGAGAAAATCACATATATGTGTTTGTCAGATCTCCCACAGAGTTAAAGCTAGAATTAGAATCGTAGAGGTTTATAGTAAATATTTTTTGAGGCAAAATTAACACATATATGAAGAAACTATTCCAAGATACTCAAGACTGGACACGATCATTCGTGTTGTGGCTACTTCAGGTTCGCAGCATACGCAGTCGGCGCAAGAACTCAGCAAACCAGCTCTGCGATCTTCACTTGGTTAGCAGAAGAAAGGACAAGCCAACACCGCTGCACGCGGTGGGTGCTCTGATGCAAGCAGTTGTGAGATCTTTCTGCGATCGATGAAGCCACCGTAAATTTTACACGTGGTCAAAGTTAGGGCGAAGAACAATGCCGATGCAACTAAGACTTCTACTTCACGATTTAAACTATCACTTGGCGGTATTTGCCTTGAAAAGCTCTTATCTGGTCTACACGATGCTCGTGGATTTATAATCAGGGACTTTGCATCCGATTAAACTGCCTCGATCACGCCTTCCGAAAGAGAGCGGTGGTATGCAAATCAAGTGTAATGACCGTAGTTTGCTGACAATCCAGAGCTCAGGAATTTTTGTGGTACATTTTATATTCAGTTTTGCCAGGATTTGGATTTGGCTATAATGGTTTGTTACCAAATGAGTGCGATAGCGCACATATAAGGTGCCATTTTGGCTCGACTCCACGACCTCCTCCGGTCGAGGTCGTAGCTGAAGCTACCTGGCTCAGTAACTTCTCTAAAGGGTCAGCTAGCATGTCTACGATGCTGTGCACCCAGGCACTACTATGTTTGGAGGGACTTGGGTACAGCAGCCTCCACTGGCCCCTACCTGTTTCGCCAGCGGCTACGTCTCTTCGATGAGCAGTGCAACAAATCGATTGGTATTTGACTGCGGCTACTCAGTATCGCTGACCTCATCGACTTTGTGCCAGTTTAACCGTCTTTCTTATGGGGCACGGTGAACTGTATAATTTCGCCGGCCTCTAGGGATTCGTTGTCCTTACATTATCTCTTTCAATTTCATTGGAGCTGGAGGTGGAGCTGCCAATGGCCGATATATTTCATGGAATTTTCGAGTACCTTATGTGCTGGATTTCGATGATGTGGGTGCGGCGGGTGGCGGCTCCTTACGCTTCCTATGGATTATTTTTAGGCACAAGCGTATGCCAACGAATTTCTTCTTAGAAAGTGGACGAAAGCCGCTTTATCCATTTCCAGTGGAGTCTGCCATGGTAATTGCGTGCAAGAGCACGTGTCGTTTAAG'..b'CAGTCAGAGCGATCGACTGACTTGCGGTAGGGGCTCGGTGGCCGAATTCGAGGCATCTGAAGCATCTTATTGGGCGGACGTCTTGGGCTATGCGGCAACGCGACCATCCCACAGTTACAACGCCCGGTTGATGACCGCAATGGCATCGTTCGCGCACATTAGCACAGAGGCTATCTGGGTCCCGTCACGCATCCTGCGAAGGCCTCTTACATCCTCTGGTTCCAGGCGGATGCCCTGAAATTGGGAGACCAGGAATTATGAGGTCCTGAGCCGTCGTTGTCTCGTCTAGTCCGCTGCAGATTAGCGCAGTCCTATGCGCCCAGTGCGAACCGAAGCAATCTCTTTGAGCGTCGCTTCTAGCTCATTTTTAAAGCTGGGGATGACCTCCGAGGCTTTGCCTTCTAATTCAGAAGTAGTTCTCCCTGTTGCGTCCTCCTTATTTTACGCACGTGCTTGCCGAATTCGGTCAGACTCGGTTCTGCTTTCATCTTCCGAAGCATATCCGAGTACGTAACCTCACCCGTTTTTTCAGGATTAGCGCCTCAGGTTTTTTGCGCAGGCGCTTGGGCTTCACCTTAGCCCATTCCTCGTCCTTGTTAGCGTCCTTGGCGACAGACGCATAACTTTCCGGTTTGGAGTCAGCCGTCGTGGGTAACGCCTTACCGGTGGATTTCGCGGCAGATCGATGGTTGTCCGTTTTGCGGACCTGCACATTCGGTAATGCCTGTCTGGGTAGCGCCACCTGGCTACGCTTTGTTTTTTCTGCCTCAGTCTGTGTGGCAGTACTCTCGTGGGGGGGCTTCTTGTTGATACCCTCCTGTAACTCAATCGCTCTGTTATTGAGCGCCGATAGGTCCACTAGCACGCCCCTATCCTCGCTGGTTACGTGACGCCTAGTCTCGAACGAGGATAGAATGGCGGTGATCTTGGCTTTCATCATGTCCAGGATGCCCTGCAGGTCCTCATTCTGGAGCGTCGTGGTCAGTTCTGGCGAGCGATGCGGCGATCCTGATGGGACTTCGCTCCCGCCCTTTGGGCCGGCACGCTGATGAAATCCATTGTCTTCAGGCTTGTGGCTGTCGTGGAGACTGTAGTGGCCAGAGTCTCCACCTCCACAGCTGCACTGCAGTCGCTAGCTTTCGGCGGCGGGGGGGCCTGCTTGCTCACCTCCCACTCCCTGGATTGGGGTTCCGACTCCTCTTATGGGATCTCGATAGCCTACCACTCCTCCTAAACGGGTCGTTGGGGTCGGGGCACTGCCCCCTGTGCTGTCCATCAGATATAAAGGGGGACTTTGGCTTGTTGGTCCCCAGCGCTCCGTGGGAAATAGAACTAGCTTCAGTTCTTAGGTTATATTTAAAATTTTTGTTCAACTTAATTAGTTCAAATTTGAATTTGAATTCGAATTTCGCGCCCAACGAGCGCGCGGCCGAATGACGATCGCACCGCTGATCTGGCAACGCCAGTCTTACCAGCTCGTCGACTGCGAAAGGTTGGCAATGCTATCAGCTGTATTGTCTGATGCAGCTGATCTGATTTATTACCAGTTTACTGGATCACTCGTGAATTCGGAACGACACCGTGACGCTCAGAACGCGGCGCAAACCCCAGAGTGGATTTGCGGGTTTATGTTGCAGTTTACGGCTGACCGGACTCGTATATGACGAAATTCGCGCAGCGCAGCAAAAGACGTGCGAAATACGCGGGAACTCGATTCACTATCATGCCATAATGTGTGTTGGTATTAGTGTGTGTGTGGAGTGAAGTAAGTCTCCAAAGTGTGTTTGATTGCGGGTAGACTGGGTTCTACGCATTATTGCAACGTTCGTTCTGCACATTAAGTTTTGATCGCCGAAGAAGACAGACATGCCTCGCTCCCGAATTAAACGCGTCAGAAAACGTTACGACGACGGGTGAGAGTGATGCTGAGTATAAAAGTGATTCAGATCCCACATACTTAATGCAAATAAGTTTATTTTCAACTTTTTCTATTGTAAAATGATATTTTATGTCTATGTGCTTAATTCTCTTGTGGCAAGTTGGGTTATTTGCAATACTAATGCAACCTGGACCTTTTAATTCTAGTTTAATTTCTACCAATAAAAACTTGAGCCATAAGGCTTCTCTAAAACCTTCAAATAAGGCCATGTAATCTGTCTTCGGTGGATGAAGCTGCAACTGATTTTTGCTTCATTGTGTTCCATGAAATTAAACAACTTTCAAACAGTTTAAATAAATATCCAGTAGTACTTCGTCTGTCTGTCTCATTTCCTGCCCAATCAGAATCAGCATGTCCAATAAGAATAATACTAAACTGTACACTTTTTCAATCTCAAATCAACAGTTCCTTTTAAATGCCTTAAAACTCTTTTAAGGCATAGCCATAATTCCTTATTGTTGTTATTCGAATATCGACTTAAAATACTTATTGATCAAGTTTCTACATGGTGCCTCACATGATTCTACAGATTGTAGAGCCTCATAGTTTAGTTTGCTTGGAAGAGGTGTACTAACTGCATTACAGTCTTCCATATTAAACTTTTCAACACATTCTTTATATATGCAGATTAACTGAGACATATCTGACTTTTATTTCTATCAATTTTAATTCCGATAAAATATCGAACTTCCTTCAAATAAGTCATTTTAAATTTATTTAGAAGGTATGATTTAAATTTAGACCTAGTTTCGGATTTACTAGTGGCAATTATTACATCGTCCACATATAACAAAATATAGATATTATCTAAGAATTTTCCTTTATCTAATATAAATTAGATTTTCAAATACAACATCTTTTCGCACATTTTCAAAACTTCAAACCAGCATCTTGCAGCTTGTTTACTGCATATTTTGCTTTATTAAGCTTTGCATTCTGCATTCTCATCGCAATATGGCAACCCTTTTGGAACCTTCATGTAGATTTCATCTTGCTCCAAGAATGCTGTTCTCACATCCATACGATGGACTTGTAAATTTTATTGATTTGAAAGAGCCAAAAAACCGAAACTGGAAATTCGTGCAGCTGGTGCAAATGTCTCATCATAATCAGTCACATATTCTTGTGTAAACCTCGTGCTACTAGCCGTGCTTTATGCTACTAAGTTTCCAAACTCATCTTGTTAGTGCTACTAAAAACCCATTTACAATCTACTATGCTTTTATTATTAGGCTTCTGCACCAAACTCCACGTTTTATTTTCTGAATGTGAACCAAGTTCATCTTGTATAGCTTTTCCCAAAAGATCTGTCATCCACGAAATTCAATTTCATCAAATCTATTGGGAATATCAATATCTATCGATAGTTTAGGTTTATCTTTGTCCAAGTTACGGGGTTGGACTGTCACCGCTCTCCGCTCCCTTTACGCTCTCCGCTCTTCACCACAGAGTCTCCAAGGAGTCTCCGCTGCGCTTGGAAGAGCCTAACTAGATAGAATAAGCACCAGTGTCAAAACTCATTTCGCAGAATAAATATACGCCCGGTCGCGCTCAATTACGAAAGTCTAGTGTTCGCTTTTCTTCGAGATTCTTTTCAGCATATTTGGAAATTCCAGGACAGCACCCTACAACCCATCATTTTTTATTTCTTTCACTGCGTCCTGATTTCTTACTCACTTTTGCTATCATTTTATTTCATCACCAGTTTCTTTAACTGGATCGGCATTCTTTAGACATGTGGAATTTTACTATGTTGTACTTTTTCTAGAATCAACAGATTCATCATTTTCCACCATTGGAAAATCGAGGACTCTACATTATCTTTATTAAAAAGAATCATAAATACTTTTATGTTGAACCTTCGAGTCTTCTTCATGTTTTAATTCGTTTGTCATCTCGATCACTCGATCGTATCTCGCTTTCAAGGCCTCATCTCTTTTGAGACGCTGCTCATTTCTTAAGAACTGAGCCAACTGCGAAACAGACCTAGAATGCCTAGCCCGGAACCGATATGTTCGGGGTCGCTTGAAAAGGCAGAGTAACGACATATT\tdp:i:29\n' |
| b |
| diff -r 156e0da5b917 -r 1ce9b1d72ec3 test-data/result3_assembly_graph.gfa --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/result3_assembly_graph.gfa Sun Dec 02 12:53:28 2018 -0500 |
| [ |
| @@ -0,0 +1,10 @@ +digraph { +nodesep = 0.5; +node [shape = circle, label = "", height = 0.3]; +"0" [style = "filled", fillcolor = "grey"]; +"1" [style = "filled", fillcolor = "grey"]; +"2" [style = "filled", fillcolor = "grey"]; +"3" [style = "filled", fillcolor = "grey"]; +"3" -> "2" [label = "id 1\l39k 29x", color = "red" , penwidth = 3] ; +"1" -> "0" [label = "id -1\l39k 29x", color = "red" , penwidth = 3] ; +} |