| Previous changeset 8:e27815e82dd4 (2021-06-30) Next changeset 10:cb8dfd28c16f (2022-10-26) |
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Commit message:
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/flye commit 7c956f5b897dc366b2e5b7e37a2fea4b51a814f3" |
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modified:
flye.xml macros.xml test-data/result1.log test-data/result1_assembly.fasta test-data/result1_assembly_graph.dot test-data/result1_assembly_graph.gfa test-data/result1_assembly_info.txt |
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| diff -r e27815e82dd4 -r 276f5d8712d5 flye.xml --- a/flye.xml Wed Jun 30 20:02:51 2021 +0000 +++ b/flye.xml Tue Nov 23 08:35:32 2021 +0000 |
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| b'@@ -20,15 +20,15 @@\n ln -s \'$input\' ./input_${counter}.${ext} &&\n #end for\n flye\n- $mode\n+ $mode_conditional.mode\n #for $counter, $input in enumerate($inputs):\n ./input_${counter}.$ext\n #end for\n -o out_dir\n -t \\${GALAXY_SLOTS:-4}\n -i $iterations\n- #if $hifi_error:\n- --hifi-error $hifi_error\n+ #if $mode_conditional.mode == \'--pacbio-hifi\' and $mode_conditional.hifi_error:\n+ --hifi-error $mode_conditional.hifi_error\n #end if\n #if $min_overlap:\n -m $min_overlap\n@@ -37,55 +37,58 @@\n --asm-coverage $asm.asm_coverage\n -g \'${asm.genome_size}\'\n #end if\n- $plasmids\n $meta\n- $trestle\n+ $scaffold\n ]]></command>\n <inputs>\n <param name="inputs" type="data" format="fasta,fasta.gz,fastq,fastq.gz,fastqsanger.gz,fastqsanger" multiple="true" label="Input reads" />\n- <param name="mode" type="select" label="Mode">\n- <option value="--nano-raw">Nanopore raw</option>\n- <option value="--nano-corr">Nanopore corrected</option>\n- <option value="--pacbio-hifi">PacBio HiFi</option>\n- <option value="--pacbio-raw">PacBio raw</option>\n- <option value="--pacbio-corr">PacBio corrected</option>\n- <option value="--subassemblies">High-quality contig-like input</option>\n- </param>\n- <param argument="--iterations" type="integer" value="0" label="Number of polishing iterations" \n+ <conditional name="mode_conditional">\n+ <param name="mode" type="select" label="Mode">\n+ <option value="--nano-raw">Nanopore raw (--nano-raw)</option>\n+ <option value="--nano-corr">Nanopore corrected (--nano-corr)</option>\n+ <option value="--nano-hq">Nanopore HQ (--nano-hq)</option>\n+ <option value="--pacbio-raw">PacBio raw (--pacbio-raw)</option>\n+ <option value="--pacbio-corr">PacBio corrected (--pacbio-corr)</option>\n+ <option value="--pacbio-hifi">PacBio HiFi (--pacbio-hifi)</option>\n+ </param>\n+ <when value="--nano-raw"/>\n+ <when value="--nano-corr"/>\n+ <when value="--nano-hq"/>\n+ <when value="--pacbio-raw"/>\n+ <when value="--pacbio-corr"/>\n+ <when value="--pacbio-hifi">\n+ <param argument="--hifi-error" type="float" min="0" max="1" optional="true" label="Expected HiFi reads error rate" help="Default: 0.01"/>\n+ </when>\n+ </conditional>\n+ <param argument="--iterations" type="integer" value="1" label="Number of polishing iterations" \n help="Polishing is performed as the final assembly stage. By default, Flye runs one polishing iteration. Additional iterations \n might correct a small number of extra errors (due to improvements on how reads may align to the corrected assembly). If the \n- parameter is set to 0, the polishing is not performed."/>\n- <param argument="--min-overlap" type="integer" optional="true" label="Minimum overlap between reads" \n+ parameter is set to 0, the polishing is not performed"/>\n+ <param argument="--min-overlap" type="integer" min="1000" max="10000" optional="true" label="Minimum overlap between reads" \n help="This sets a minimum overlap length for two reads to be considered overlapping. By default it is chosen \n automatically based on the read length distribution (reads N90) and does not require manual setting. Typical \n value is 3k-5k (and down to 1k for datasets with shorter read length). Intuitively, we want to set this \n parameter as high as possible, so the repeat graph is less tangled. However, higher values might lead to assembly gaps.\n In some rare cases it makes sense to'..b'--Test 07: keep haplotypes-->\n <test expect_num_outputs="4">\n <param name="inputs" ftype="fastq.gz" value="ecoli_hifi_01.fastq.gz,ecoli_hifi_02.fastq.gz,ecoli_hifi_03.fastq.gz,ecoli_hifi_04.fastq.gz,ecoli_hifi_05.fastq.gz,ecoli_hifi_06.fastq.gz,ecoli_hifi_07.fastq.gz,ecoli_hifi_08.fastq.gz,ecoli_hifi_09.fastq.gz"/>\n- <param name="mode" value="--pacbio-hifi"/>\n- <param name="iterations" value="1"/>\n+ <conditional name="mode_conditional">\n+ <param name="mode" value="--pacbio-corr"/>\n+ <param name="hifi_error" value="0.21"/>\n+ </conditional>\n+ <param name="min_overlap" value="1000"/>\n <param name="keep-haplotypes" value="true"/>\n <output name="assembly_info" ftype="tabular">\n <assert_contents>\n@@ -267,17 +280,44 @@\n </output>\n <output name="assembly_graph" ftype="graph_dot">\n <assert_contents>\n- <has_size value="2135" delta="100"/>\n+ <has_size value="1273" delta="100"/>\n </assert_contents>\n </output>\n <output name="assembly_gfa" ftype="txt">\n <assert_contents>\n- <has_size value="114351" delta="100"/>\n+ <has_size value="420252" delta="100"/>\n </assert_contents>\n </output>\n <output name="consensus" ftype="fasta">\n <assert_contents>\n- <has_size value="116191" delta="100"/>\n+ <has_size value="427129" delta="100"/>\n+ </assert_contents>\n+ </output>\n+ </test>\n+ <!--Test 08: scaffolding mode-->\n+ <test expect_num_outputs="4">\n+ <param name="inputs" ftype="fastq.gz" value="ecoli_hifi_01.fastq.gz,ecoli_hifi_02.fastq.gz,ecoli_hifi_03.fastq.gz,ecoli_hifi_04.fastq.gz,ecoli_hifi_05.fastq.gz,ecoli_hifi_06.fastq.gz,ecoli_hifi_07.fastq.gz,ecoli_hifi_08.fastq.gz,ecoli_hifi_09.fastq.gz"/>\n+ <param name="mode" value="--nano-hq"/>\n+ <param name="min_overlap" value="1000"/>\n+ <param name="scaffolding" value="true"/>\n+ <output name="assembly_info" ftype="tabular">\n+ <assert_contents>\n+ <has_size value="286" delta="100"/>\n+ </assert_contents>\n+ </output>\n+ <output name="assembly_graph" ftype="graph_dot">\n+ <assert_contents>\n+ <has_size value="1248" delta="100"/>\n+ </assert_contents>\n+ </output>\n+ <output name="assembly_gfa" ftype="txt">\n+ <assert_contents>\n+ <has_size value="420252" delta="100"/>\n+ </assert_contents>\n+ </output>\n+ <output name="consensus" ftype="fasta">\n+ <assert_contents>\n+ <has_size value="427129" delta="100"/>\n </assert_contents>\n </output>\n </test>\n@@ -301,8 +341,7 @@\n \n Input reads can be in FASTA or FASTQ format, uncompressed or compressed with gz. Currently, PacBio (raw, corrected, HiFi) and ONT reads \n (raw, corrected) are supported. Expected error rates are <30% for raw, <3% for corrected, and <1% for HiFi. Note that Flye was primarily \n-developed to run on raw reads. Additionally, the *--subassemblies* option performs a consensus assembly of multiple sets of high-quality \n-contigs. You may specify multiple files with reads (separated by spaces). Mixing different read types is not yet supported. The *--meta* o\n+developed to run on raw reads. You may specify multiple files with reads (separated by spaces). Mixing different read types is not yet supported. The *--meta* o\n ption enables the mode for metagenome/uneven coverage assembly.\n \n Genome size estimate is no longer a required option. You need to provide an estimate if using *--asm-coverage* option.\n' |
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| diff -r e27815e82dd4 -r 276f5d8712d5 macros.xml --- a/macros.xml Wed Jun 30 20:02:51 2021 +0000 +++ b/macros.xml Tue Nov 23 08:35:32 2021 +0000 |
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| @@ -1,5 +1,5 @@ <macros> - <token name="@TOOL_VERSION@">2.8.3</token> + <token name="@TOOL_VERSION@">2.9</token> <token name="@SUFFIX_VERSION@">0</token> <xml name="requirements"> <requirements> |
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| diff -r e27815e82dd4 -r 276f5d8712d5 test-data/result1.log --- a/test-data/result1.log Wed Jun 30 20:02:51 2021 +0000 +++ b/test-data/result1.log Tue Nov 23 08:35:32 2021 +0000 |
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| b'@@ -1,97 +1,99 @@\n-[2021-06-30 16:00:39] root: INFO: Starting Flye 2.8.3-b1695\n-[2021-06-30 16:00:39] root: DEBUG: Cmd: /usr/local/bin/flye --pacbio-raw ./input_0.fastq.gz ./input_1.fastq.gz ./input_2.fastq.gz ./input_3.fastq.gz ./input_4.fastq.gz ./input_5.fastq.gz ./input_6.fastq.gz -o out_dir -t 1 -i 0\n-[2021-06-30 16:00:39] root: DEBUG: Python version: 3.9.2 | packaged by conda-forge | (default, Feb 21 2021, 05:02:46) \n+[2021-11-22 18:13:09] root: INFO: Starting Flye 2.9-b1768\n+[2021-11-22 18:13:09] root: DEBUG: Cmd: /usr/local/bin/flye --pacbio-raw ./input_0.fastq.gz ./input_1.fastq.gz ./input_2.fastq.gz ./input_3.fastq.gz ./input_4.fastq.gz ./input_5.fastq.gz ./input_6.fastq.gz -o out_dir -t 1 -i 0\n+[2021-11-22 18:13:09] root: DEBUG: Python version: 3.9.6 | packaged by conda-forge | (default, Jul 11 2021, 03:39:48) \n [GCC 9.3.0]\n-[2021-06-30 16:00:39] root: INFO: >>>STAGE: configure\n-[2021-06-30 16:00:39] root: INFO: Configuring run\n-[2021-06-30 16:00:39] root: INFO: Total read length: 7249289\n-[2021-06-30 16:00:39] root: INFO: Reads N50/N90: 11150 / 5790\n-[2021-06-30 16:00:39] root: INFO: Minimum overlap set to 5000\n-[2021-06-30 16:00:39] root: INFO: >>>STAGE: assembly\n-[2021-06-30 16:00:39] root: INFO: Assembling disjointigs\n-[2021-06-30 16:00:39] root: DEBUG: -----Begin assembly log------\n-[2021-06-30 16:00:39] root: DEBUG: Running: flye-modules assemble --reads ./input_0.fastq.gz,./input_1.fastq.gz,./input_2.fastq.gz,./input_3.fastq.gz,./input_4.fastq.gz,./input_5.fastq.gz,./input_6.fastq.gz --out-asm /tmp/tmpicy_msib/job_working_directory/000/8/working/out_dir/00-assembly/draft_assembly.fasta --config /usr/local/lib/python3.9/site-packages/flye/config/bin_cfg/asm_raw_reads.cfg --log /tmp/tmpicy_msib/job_working_directory/000/8/working/out_dir/flye.log --threads 1 --min-ovlp 5000\n-[2021-06-30 16:00:39] DEBUG: Build date: Mar 27 2021 19:08:40\n-[2021-06-30 16:00:39] DEBUG: Total RAM: 15 Gb\n-[2021-06-30 16:00:39] DEBUG: Available RAM: 11 Gb\n-[2021-06-30 16:00:39] DEBUG: Total CPUs: 8\n-[2021-06-30 16:00:39] DEBUG: Loading /usr/local/lib/python3.9/site-packages/flye/config/bin_cfg/asm_raw_reads.cfg\n-[2021-06-30 16:00:39] DEBUG: Loading /usr/local/lib/python3.9/site-packages/flye/config/bin_cfg/asm_defaults.cfg\n-[2021-06-30 16:00:39] DEBUG: \tbig_genome_threshold=29000000\n-[2021-06-30 16:00:39] DEBUG: \tmeta_read_filter_kmer_freq=100\n-[2021-06-30 16:00:39] DEBUG: \tmax_coverage_drop_rate=5\n-[2021-06-30 16:00:39] DEBUG: \tmax_extensions_drop_rate=5\n-[2021-06-30 16:00:39] DEBUG: \tchimera_window=100\n-[2021-06-30 16:00:39] DEBUG: \tmin_reads_in_disjointig=4\n-[2021-06-30 16:00:39] DEBUG: \tmax_inner_reads=10\n-[2021-06-30 16:00:39] DEBUG: \tmax_inner_fraction=0.25\n-[2021-06-30 16:00:39] DEBUG: \tmax_separation=500\n-[2021-06-30 16:00:39] DEBUG: \tunique_edge_length=50000\n-[2021-06-30 16:00:39] DEBUG: \tmin_repeat_res_support=0.51\n-[2021-06-30 16:00:39] DEBUG: \tout_paths_ratio=5\n-[2021-06-30 16:00:39] DEBUG: \tgraph_cov_drop_rate=5\n-[2021-06-30 16:00:39] DEBUG: \tcoverage_estimate_window=100\n-[2021-06-30 16:00:39] DEBUG: \tmax_bubble_length=50000\n-[2021-06-30 16:00:39] DEBUG: \tloop_coverage_rate=1.5\n-[2021-06-30 16:00:39] DEBUG: \trepeat_edge_cov_mult=1.75\n-[2021-06-30 16:00:39] DEBUG: \tweak_detach_rate=5\n-[2021-06-30 16:00:39] DEBUG: \ttip_coverage_rate=2\n-[2021-06-30 16:00:39] DEBUG: \ttip_length_rate=2\n-[2021-06-30 16:00:39] DEBUG: \tlow_cutoff_warning=1\n-[2021-06-30 16:00:39] DEBUG: \thard_min_coverage_rate=10\n-[2021-06-30 16:00:39] DEBUG: \tkmer_size=17\n-[2021-06-30 16:00:39] DEBUG: \tuse_minimizers=0\n-[2021-06-30 16:00:39] DEBUG: \treads_base_alignment=0\n-[2021-06-30 16:00:39] DEBUG: \tassemble_kmer_sample=1\n-[2021-06-30 16:00:39] DEBUG: \trepeat_graph_kmer_sample=1\n-[2021-06-30 16:00:39] DEBUG: \tread_align_kmer_sample=1\n-[2021-06-30 16:00:39] DEBUG: \tmeta_read_top_kmer_rate=0.40\n-[2021-06-30 16:00:39] DEBUG: \tmaximum_jump=1500\n-[2021-06-30 16:00:39] DEBUG: \tmaximum_overhang=1500\n-[2021-06-30 16:00:39] DEBUG: \trepeat_kmer_rate=100\n-[2021-06-30 16'..b'30 16:02:01] root: DEBUG: 10-consensus/\n-[2021-06-30 16:02:01] root: DEBUG: 415.0 K consensus.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 37.0 B chunks.fasta.fai\n-[2021-06-30 16:02:01] root: DEBUG: 30-contigger/\n-[2021-06-30 16:02:01] root: DEBUG: 409.0 K graph_final.gfa\n-[2021-06-30 16:02:01] root: DEBUG: 0.0 B scaffolds_links.txt\n-[2021-06-30 16:02:01] root: DEBUG: 111.0 B contigs_stats.txt\n-[2021-06-30 16:02:01] root: DEBUG: 367.0 B graph_final.gv\n-[2021-06-30 16:02:01] root: DEBUG: 414.0 K graph_final.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 414.0 K contigs.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 00-assembly/\n-[2021-06-30 16:02:01] root: DEBUG: 429.0 K draft_assembly.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 20-repeat/\n-[2021-06-30 16:02:01] root: DEBUG: 414.0 K graph_before_rr.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 183.0 B repeat_graph_dump\n-[2021-06-30 16:02:01] root: DEBUG: 367.0 B graph_before_rr.gv\n-[2021-06-30 16:02:01] root: DEBUG: 367.0 B graph_after_rr.gv\n-[2021-06-30 16:02:01] root: DEBUG: 414.0 K repeat_graph_edges.fasta\n-[2021-06-30 16:02:01] root: DEBUG: 129.0 K read_alignment_dump\n-[2021-06-30 16:02:01] root: DEBUG: --------------------------\n-[2021-06-30 16:02:01] root: INFO: Assembly statistics:\n+[2021-11-22 18:14:27] root: INFO: >>>STAGE: finalize\n+[2021-11-22 18:14:27] root: DEBUG: ---Output dir contents:----\n+[2021-11-22 18:14:27] root: DEBUG: out_dir/\n+[2021-11-22 18:14:27] root: DEBUG: 367.0 B assembly_graph.gv\n+[2021-11-22 18:14:27] root: DEBUG: 416.0 K assembly.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 92.0 B params.json\n+[2021-11-22 18:14:27] root: DEBUG: 28.0 K flye.log\n+[2021-11-22 18:14:27] root: DEBUG: 409.0 K assembly_graph.gfa\n+[2021-11-22 18:14:27] root: DEBUG: 10-consensus/\n+[2021-11-22 18:14:27] root: DEBUG: 1.0 K minimap.stderr\n+[2021-11-22 18:14:27] root: DEBUG: 449.0 K consensus.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 3.0 K minimap.bam.bai\n+[2021-11-22 18:14:27] root: DEBUG: 30-contigger/\n+[2021-11-22 18:14:27] root: DEBUG: 409.0 K graph_final.gfa\n+[2021-11-22 18:14:27] root: DEBUG: 0.0 B scaffolds_links.txt\n+[2021-11-22 18:14:27] root: DEBUG: 111.0 B contigs_stats.txt\n+[2021-11-22 18:14:27] root: DEBUG: 367.0 B graph_final.gv\n+[2021-11-22 18:14:27] root: DEBUG: 414.0 K graph_final.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 414.0 K contigs.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 00-assembly/\n+[2021-11-22 18:14:27] root: DEBUG: 61.0 B draft_assembly.fasta.fai\n+[2021-11-22 18:14:27] root: DEBUG: 465.0 K draft_assembly.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 20-repeat/\n+[2021-11-22 18:14:27] root: DEBUG: 414.0 K graph_before_rr.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 183.0 B repeat_graph_dump\n+[2021-11-22 18:14:27] root: DEBUG: 367.0 B graph_before_rr.gv\n+[2021-11-22 18:14:27] root: DEBUG: 367.0 B graph_after_rr.gv\n+[2021-11-22 18:14:27] root: DEBUG: 414.0 K repeat_graph_edges.fasta\n+[2021-11-22 18:14:27] root: DEBUG: 119.0 K read_alignment_dump\n+[2021-11-22 18:14:27] root: DEBUG: --------------------------\n+[2021-11-22 18:14:27] root: INFO: Assembly statistics:\n \n-\tTotal length:\t418805\n+\tTotal length:\t419576\n \tFragments:\t1\n-\tFragments N50:\t418805\n-\tLargest frg:\t418805\n+\tFragments N50:\t419576\n+\tLargest frg:\t419576\n \tScaffolds:\t0\n-\tMean coverage:\t15\n+\tMean coverage:\t14\n \n-[2021-06-30 16:02:01] root: INFO: Final assembly: /tmp/tmpicy_msib/job_working_directory/000/8/working/out_dir/assembly.fasta\n+[2021-11-22 18:14:27] root: INFO: Final assembly: /tmp/tmpakmcmxzn/job_working_directory/000/8/working/out_dir/assembly.fasta\n' |
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| diff -r e27815e82dd4 -r 276f5d8712d5 test-data/result1_assembly.fasta --- a/test-data/result1_assembly.fasta Wed Jun 30 20:02:51 2021 +0000 +++ b/test-data/result1_assembly.fasta Tue Nov 23 08:35:32 2021 +0000 |
| b |
| b'@@ -1,6982 +1,6994 @@\n >contig_1\n-AATAAACCGTTCCAGGGATAACAAAACTGAAACGTGTTCCTTTTCCTACTGTACTCTCCA\n-AATATTCAGGCGACTTTCTGATGATTCACAGCATGTTTCACGAATTCGCTAACCCTAATC\n-CGCTACCGCGGTTTAGCCGGCGAGACCCCGCTTTATCAACGCGATAAAAACGCTTCGGGT\n-CAGGGCGCGGAATAATGCTCCGGTGCAATGCCCGGGTCCGTTATCTTCAAACGCTAAATT\n-CGGCACCGTGCGGCACTCGCTGCCAGCGTACGGTGATATGCGTGCCCTTCCGGCGTATGG\n-AATCACGCGTTATAGACCAGGGTTGAAATCGCACTGCGGTAGCTGATCTTCGTTGCCAGA\n-CACCTTGAGGCCGTTATCTATCTCAAAGGTAAATGTCTGTTTTTCTGACTCAGAGTCTGA\n-CCTCGCGCTCAACAACGCGCAGCATCATCGGACACATCAACCTTTTCATTTGAGCAAATG\n-CGTCGGTGCGGCTTCTATTTTCGACAGCGTCAGCAATTGCTTCACCAGGTCCTTCCATCC\n-CGCTGGGTCTGCTCGCGCATGATGTGTGCAACGCTTTTTCCGCTACCGCGCCTTCCAGCG\n-GCTGCTCATTCATCATTCCCAGGTAACCCTGTAACACGGTCAAATGGCGTACGTAACTCA\n-TGGCTCACGTTGGCAAAAAAGTTACGCCGCGCCCCCTTCCAGTTGATGCATTTGCGTGAC\n-ATCACGCGCCACCATCAGCAACTGTTTGTGGGTATAAGGCATGACGCGAATTTCCAGATG\n-CCGCCCCACGGTGTTGAGCACCAGATTGAGCGGGGCGAGAAAAATCACGCGTTTTCAGAT\n-ATTGCGTAAACTCCGGGTAACGCAGTAGGTTAAGGATGTTCTGCCCGTTATCTCGGCCAG\n-CGCAAACCAAGAATTTGTTGCGGCCAGACCGTTACACCAGGAAAATACCGCCCTCTTCCG\n-TGGTCAGCACCACCGCGTCGGGCAGCGACTCCGCGCCGCTACGAAAGCGTTTTAATCAGA\n-TTGCCCAAGTTCACGGCGGCGTTTTTTATTTCCGCAGCTGCATCTGGTGTAAGCCGTATA\n-GTAGCGGTTCCCAGCTACCACGCCCCGGTGGCGGGGTCATACTGCGATCCCACCCAACAG\n-CCACCATGAAAGGCGCAATAAATTCCAGAAATGCCAGATAAGCAGTCCTGTTAACCGATG\n-CCAGCAAAAACCAGGGCAGGTAACCAAAAAATGCACCCAGGGATGAAAGCCGGGAGGCAG\n-CAAAGTAGCAGCTCCAGCACCAGCCCTTTTCCACGACAGCCGTTCCAGCAACGTAAGATA\n-CTCCAGTTAAGAAAACATAAGCCCTGCTCTGCGCCCGATGAGCAAGGCGTTAAAAGCGGG\n-GTTGAAAAACGATTATCCTGTACCGCGCACGGTCTGCACCATGCGGTCATGCCCGCCGGG\n-CTCCAGTGCTTTACGCAGGCACGAATGTGGACATCGACCGTGCGGTCTTCCCAATACACG\n-TTAGTTCCCCAGACGTGTTTAACAGCTGCTCGCGGCTTCACGCCGCTCAGGATGCGTCAT\n-AAAAAAGTGCAGCAGTTTAAATTCTGTCGGCCCCATCTCCAGCGGCTCTTCGCCCGCCAT\n-CACTCGGGGAGATGTCGGGTCGAGACTTAATCCCTGCATCTCAATCACCTCTTCCACCGC\n-CATTGGGAAATACGGCGCATTACCGCTTTGATTCGCGCCACCAGCTCCTTCGGCGAAAAC\n-ACGGCTTGGTGATATAGTCATCCGCGCCGGTTTCAGGCCGCGCACGCGATCTTCTTCTTC\n-CCCTCTGGCGGTCAACATCACAACTGGAATATCCCGGGTCATCGACTCGCGCTTGAGGTG\n-TTTGATGAACTGGATACCGGAGCCGCCAGGTAACATCCAGTCGAGGAGAATTAAAATCCG\n-GCCAGGGTTCATTCAGTTTGATTCACAGCACTGTCATAATCTTTCCGCTTCGACCGGCTG\n-AAGCCATTTTGTTCGAGCACGAAGCAGACCATTTCGCGAATTGGAGCTTCATCTTCTACG\n-ACCAGAATTACGTCTCGCCATGATTTGCCCTGTTGTAATAAATAGGTTGCGATCATTAAT\n-GCGACGTCATTATGCGTCAGATTTATGACAGATTTATGAAAAGCCTCGTCGCACATATCT\n-TCAGGTTATTGATTTCCGTGGCGCAGAAAAAAGCAAATGCACATTCGTTTGGGTATAATC\n-GCGCCCATGCTTTTTCGCCAGGGAACCGTTATGCGCATCCTTCACACCTCAGACTGGCAT\n-CTCGGCCAGAACTTCTACAGTAAAAAGCCGCGAAGCTGAACATCAGGCTTTTCTTGACTG\n-GCTGCTGGAGACAGCACAAACCCATCAGGTGGATGCGATTATTGTTGCCGGTGATGTTTT\n-CGATACCGGGCTCGCCGCCCAGTTACGCCCGCACGTTATACAACCGTTTTGTTGTCAATT\n-TACAGCAAACTGGCTGTCATCTGGTGGTACTGGCAGGAACCATGACTCGGTCGCCACGCT\n-GAATGAATCGCGCGATATCATGGCGTCCTCAATACTACCGTGGTCGCCAGCGCCGGACAT\n-GCGCCGCAAATCTTGCCTCGTCGCGACGGGACGCCAGGCGCAGTGCTGTGCCCCATTTCG\n-TTTTTACGTCCGCGTGACATTATTACCAGCCAGGCGGGGCTTAACGGTATTGAAAAAACA\n-GCACATTTACTGGCAGCGATTACCGATTATTACCAACAACACTATGCCGATGCCTGCAAA\n-CTGCGCGGCGATCAGCCTCTGCCCATCATCGCCACGGGACATTTAACGACCGTGGGGGCC\n-AGTAAAAGTGACGCCGTGCGTGACCATTTATATTGGCACGCTGGACGCGTTTCCGGCACA\n-AAACTTTCCACCAGCCGACTACATCGCGCTCGGGCATATTCACCGCGCACAGATTATTGG\n-CGGCATGGAACATGTTCGCTATTGCGGCTCCCCCATTCCACTGAGTTTTGATGAATGCGG\n-TAAGAGTAAATATGTCCATCTGGTGACATTTTCAAACGGCAAATTAGAGAGCGTGGAAAA\n-CCTGAACGTACCGGTAACGCAACCCATGGCAGTGCTGAAAGGCGATCTGGCGTCGATTAC\n-CGCACAGCTGGAACAGTGGCGCGATGTATCGCAGGAGCCACCTGTCTGGCTGGATATCGA\n-AATCACTACTGATGAGTATCTGCATGATATTCAGCGCAAAATCCAGGCATTAACCGAATC\n-ATTGCCCTGTCGAAGTATTGCTGGTACGTCGGAGTCGTGAACAGCCCGAGCGTGTGTTAG\n-CCAGCCAACAGCGTGAAACCCTCAGCGAACTCAGCGTCGAAGAGGGTGTTCAATCGCCGT\n-CTGGCACTGGAAGAACTGGATGAATCGCAGCAGCAACGTCTGCAGCATCTTTTCACCACG\n-ACGTTGCATACCCTCGCCGGGAGAACACGAAGCATGAAAATTCTCAGCCTGCGCCTGAAA\n-AACCTGAACTCATTAAAAGGCGAATGGAAGATTGATTTCACCCGCGAGCCGTTCGCCAGC\n-AACGGCTGTTTGCTATTACCGGCCCAACAGGTGCGGGGAAAACCACCCTGCTGGACGCCA\n-TTTGTCTGGCGCTGTATCACGAAACTCCGCGTCTCTCTAACGTTTCACAATCGCAAAATG\n-ATCTCATGACCCGCGATACCGCCGAATGTCTGGCGGAGGTGGAGTTTGAAGTGAAAGGTG\n-AAGCGTACCGTGCATTCTGGAGCCAGAATCGGGCGCGTAACCAACCCGACGGTAATTTGC\n-AAGGGCCACGCGTAGAGCTGGCGCGCTGCGCCGACGGCAAAATTCTCGCCGACAAAGTG'..b'GGAAAAAACAGCCCCTGATTTTTGCCCAAACCCC\n+TGGGTTACGCTTGCGCAAAGCTGACCTGCCTCGTTGTGATCTTTCAGATTGAGGTTTCAT\n+TTAGTTTTCCAGTACTCGTGCGCCCCCCGTATCCAGCCGGCAAATATGACAAAACCTTCC\n+TGATTTTGCAGGTAGTTCTTACCCAACCAGTCGGCAACGCGCGGGGCGGTTTCCGGCTTG\n+TCACACAGAGCGAACAAGGTCCGGGCCGGAGCCGGAGATACCGCTCGCTACCGCGCCATT\n+TCCGCGACCGCCTGCCGCGCCTGCCGGAAGCCTGGCAGTAACCGTTCACGGTAGGTTCAC\n+GCGATAACATCTTTTCATACAGCGTTCGCGGCAAGCTCAGGCTGACGGGAATAGCAGGCG\n+TGAATGAAGCCTGCCAGATGTCGCCCGTGCGCAATGCAATCCTGGCGCGATACTGCCCCG\n+GTAAAATAGCCCTGGCTTTTCCGTCGAGACTTTAATCCCCGGATACGCCAGCACCCACAG\n+CCACTCATCCAAACCTGGCACTTGCTGGCTGATGATGTCGTTTTCTTCGATCATCAACTG\n+CATACCACCGAGAAAACACGGTGCCACGTTGTCGTAATGAATGCTGCCGGAGATACGGCC\n+TTCCAGCTCGCCCATCAAAAGCCAGCGAACGAGTGTCATTAAGCGGCTTGCCGCAGTGTT\n+CAATTTCATCCCATCAGCGCCGCGACCACGAAACAGGCACTGGAGCCTAAGCCCGAACCG\n+ATCGGCATATTCTTTTCCAGGGTCATCGCCACTGGAATTTGCTTACCCAGTTCCTGGCAA\n+AAACGCCTCCCAGCACTGATAAACGATATTTTCCCGTGGTTTCTGACGGCAGCCTTATCC\n+GGGCAAAGCGTCCGAGGTTGTTGAGACTGAATGTCTCTGCCGCCTCAACCGTGACTACAT\n+CTCCGAGCAATGCACCATCAACAGGTGTCACCGCCGCCCCGAGCACATCAAACCCGACGC\n+TCATATTGGCACTGGAAGCCGGGGCATAAACTTTAACCATTTTCAGACTCCTAACTTCCA\n+TGAGAGGGTACGTAGCAGATCAGCAAAGACACCGGCAGCTGTAACCGTCAATTTGCCCGC\n+ACCATATCCGCGCAGTACCAAACGGCAAGCGGCTGATAATAGTGGCTTAAGAGCCAGGGC\n+GTTTTCGCCATTTTTCACTTTGAACAGCGGATCATTACCATCCACTTCGGCAATCTTCAC\n+GCGGCAGACGCCATCTTCATCAATATTGCCAACATAGCGCAAAACCTTTCCCTTCATCAC\n+GGGCCTTCGCCACGCGCGCGGCAAAGAGATCGTCGAGTTGTGACAGATTCGCCATAAAAG\n+CGGCAACATCACCCTCGGCGTTAACCTCTGCGGGGCAGCACAGGTTCAATTTCAATATCC\n+GCCAGCTCCAGTTCACTCCCGTTTCACGAGCGAGAATCAATAGTTTACGCGCCACATCCA\n+TACCAGAAAGATCATCTCGCCGGGTCCGGTTCGGTATAACCCATTTCCCGACGCAGCGTG\n+GTCGCCTCGGAGAAACTCATGCCTTCGTAAACTTGCCGAAGATATAAGAAAGCCGAACCA\n+GACAAGAATGCCGGAGAACTTCATCAATTCATCACCTGCATTGAGCAGATTTTGCAGGTT\n+CTCAATAACCGGTAATCCAGCCCCAACGTTGGTGTCATAGAGGAATTTACGCCGCGATTT\n+TTCCGCCCGCATAACGCAACTGATGGTAGTAATCCATCGACGAGGTGTTTGCCTTTTTGT\n+TCGGCGTGACAACGTGGAAACCTTCGCGCCAGGAAGTCGGCATATTGATCCGCCACCTGC\n+CTGGCTGGAAGTGCAGTCAACAATGACCGGGTTTCAGCAGATGATATTCTTTTCACAAGG\n+CGAGTTAGCGCCCGGGATAAACGGCTCTTGGCTTGCGCCAGTTCTTCCTGCCAGTTTTCC\n+AGATTAAGGCCCATGTAATTGGTGAGCAGAGCCTTCGAGTTGGCAACACCGCAGACACGT\n+AAGTCGATTATTTTATTCTTCAGCCCAGCTTTGCTGACGCGCTTCAGTTGCTCCAGCAGC\n+GGCACCGCCAACGCCACCGACGCCAATCACAAACACTTCGATAACCTGATCGGTATTGAA\n+CAGGCATCTGATGAGTAACGCGCACGCCAGTGGTCGCATCATCGTTATTTACCACGACAC\n+GAGATTGAGCGTTCAGAAGATCCCTGAGCAATGGCGACAATGTTGATATTTGGCGCGGCC\n+AGGCGGCAAAGAATTCTCGCCGAGATCCCACGCAAGGTGCGCATACCATCACCTCCCACG\n+AGATAAATGGCCAGCCGTTCCGCACTGCCAGCGGCTCCCAGTAGCCTTCTTTCAGTTCCA\n+GGTAGAACTCTCCTGGCATGCCCGTTCAGCTCGCACACAGTCGCTTTGTGGAACGCAGAA\n+ACTAATGCGTATTCGGAAAGATGATTGCGTAATCAGCCACACGGAAATACCGGGCGCGTG\n+ACATCGGCTGCAAAGCGCGCCGCCGCCATGCCGACCATCCTATCATCCCCGGACCAGAAC\n+GCTGAAACATGCCATGTTAATTCAGATTGGAAATGGTTCCCTTGACCGGTAATTCGTCTT\n+CAACACGGCTGGCACCAATTAGCGTACCTGGTGCTTGAGGATTTCCGGTATTTTTTAATC\n+AGGCAAAGGGATCTGGAACTGGGCGATGGGGGTAATGGTGCGGGTGAAGAACTTTAGCGC\n+CGAAAGTAGGAAACCCATCGCTTCCTGGTAGGAACATCGACTTCAACAACCTCGCATCGG\n+GGCCACCTGACGCGGGTCGCAGGTATAGACCCCCGTCAACGTCCGCCAAATCTCGCAACA\n+ATCGGGGCCCGTAAACAGGCAGCCAGCACCGCAGCAGAAGTAGTCGGAACCGTTGCGTCC\n+AAGCACCACCAGTTCGCCTTTTTCATTACCGGCGGGGGAACCTGCCATCAGCACGCATGT\n+GATCAGCCGGAATGCAGGGCTTGCCGCAATTAGGCGGGTGGACTCAGGAAATCGACGGTA\n+GATTCGAGGTAATGCCCCACCGCCAGCAGTTTTTCGACCGGATCGATAACCTAAGTACTT\n+GTGACGCCGGCGCCGTCTATACGCCGGCATAAATGGCGAGCGACATTTCTCGCCACGGCC\n+AAAATCGAGCGCCAGCGTTTGATGCTAATCCGGCACTGCCCAACAAACTATTGCCATGGG\n+CAGACATGTTTTATTGGGCCAAATTCCTGATCGACGAAAGTTTTCAATGCGCCAGCGGGA\n+ACCCCCGGCGGGGCGGCGGCGGTCTACCAGGTCAAAAGGTATCGGCAAAAAATACGTTGG\n+CCATCGCGATTATTGGTAAAGCATCCTGGCCCCTAAATGGTATTTTGTCAATTCATCGAC\n+ACCAAGGTGTTGGTGATTTTTGCGGGCGGGTCAGAGAGGGACGGTGGGCCTACCTGCCTC\n+CTGCCTTCGGCTCGGCTTTCTAGAATATCGGCAAACACGCGAAAAAACGTTCTGCATTTG\n+CCACTGATGATACCGCCCGAAACTTCAACACTCGCATGGTGTTTACCTCGTTACCTTTGG\n+TCGAAAAAAAAAGCCCCGCACTGTCTAAAGGTGGCGGGCTTTTATTACATGTGTTTCCGT\n+ACGCGTACGGCCCCGCTACCGATACCTGTGGTAATCGGTGAATGTGGGGGTATACGGTGG\n+TGCTATCGTTTTCATGGATGTTGATGAATCTCTGGTATTTTTATCTGTCGGTGCGCTAGG\n+CCTATATTGGTTAAAAATATTTGTGGTTCCGAGTCAATAAAATTTTTAATTTACCACGGG\n+GCCCAAGGAAACCAGTTCAATAAACATGCTATCAGACACCTTTTTTTAGATCCACC\n' |
| b |
| diff -r e27815e82dd4 -r 276f5d8712d5 test-data/result1_assembly_graph.dot --- a/test-data/result1_assembly_graph.dot Wed Jun 30 20:02:51 2021 +0000 +++ b/test-data/result1_assembly_graph.dot Tue Nov 23 08:35:32 2021 +0000 |
| [ |
| @@ -5,6 +5,6 @@ "1" [style = "filled", fillcolor = "grey"]; "2" [style = "filled", fillcolor = "grey"]; "3" [style = "filled", fillcolor = "grey"]; -"1" -> "3" [label = "id 1\l418k 15x", color = "black"] ; -"2" -> "0" [label = "id -1\l418k 15x", color = "black"] ; +"3" -> "2" [label = "id 1\l419k 14x", color = "black"] ; +"1" -> "0" [label = "id -1\l419k 14x", color = "black"] ; } |
| b |
| diff -r e27815e82dd4 -r 276f5d8712d5 test-data/result1_assembly_graph.gfa --- a/test-data/result1_assembly_graph.gfa Wed Jun 30 20:02:51 2021 +0000 +++ b/test-data/result1_assembly_graph.gfa Tue Nov 23 08:35:32 2021 +0000 |
| b |
| b'@@ -1,2 +1,3 @@\n H\tVN:Z:1.0\n-S\tedge_1\tAATAAACCGTTCCAGGGATAACAAAACTGAAACGTGTTCCTTTTCCTACTGTACTCTCCAAATATTCAGGCGACTTTCTGATGATTCACAGCATGTTTCACGAATTCGCTAACCCTAATCCGCTACCGCGGTTTAGCCGGCGAGACCCCGCTTTATCAACGCGATAAAAACGCTTCGGGTCAGGGCGCGGAATAATGCTCCGGTGCAATGCCCGGGTCCGTTATCTTCAAACGCTAAATTCGGCACCGTGCGGCACTCGCTGCCAGCGTACGGTGATATGCGTGCCCTTCCGGCGTATGGAATCACGCGTTATAGACCAGGGTTGAAATCGCACTGCGGTAGCTGATCTTCGTTGCCAGACACCTTGAGGCCGTTATCTATCTCAAAGGTAAATGTCTGTTTTTCTGACTCAGAGTCTGACCTCGCGCTCAACAACGCGCAGCATCATCGGACACATCAACCTTTTCATTTGAGCAAATGCGTCGGTGCGGCTTCTATTTTCGACAGCGTCAGCAATTGCTTCACCAGGTCCTTCCATCCCGCTGGGTCTGCTCGCGCATGATGTGTGCAACGCTTTTTCCGCTACCGCGCCTTCCAGCGGCTGCTCATTCATCATTCCCAGGTAACCCTGTAACACGGTCAAATGGCGTACGTAACTCATGGCTCACGTTGGCAAAAAAGTTACGCCGCGCCCCCTTCCAGTTGATGCATTTGCGTGACATCACGCGCCACCATCAGCAACTGTTTGTGGGTATAAGGCATGACGCGAATTTCCAGATGCCGCCCCACGGTGTTGAGCACCAGATTGAGCGGGGCGAGAAAAATCACGCGTTTTCAGATATTGCGTAAACTCCGGGTAACGCAGTAGGTTAAGGATGTTCTGCCCGTTATCTCGGCCAGCGCAAACCAAGAATTTGTTGCGGCCAGACCGTTACACCAGGAAAATACCGCCCTCTTCCGTGGTCAGCACCACCGCGTCGGGCAGCGACTCCGCGCCGCTACGAAAGCGTTTTAATCAGATTGCCCAAGTTCACGGCGGCGTTTTTTATTTCCGCAGCTGCATCTGGTGTAAGCCGTATAGTAGCGGTTCCCAGCTACCACGCCCCGGTGGCGGGGTCATACTGCGATCCCACCCAACAGCCACCATGAAAGGCGCAATAAATTCCAGAAATGCCAGATAAGCAGTCCTGTTAACCGATGCCAGCAAAAACCAGGGCAGGTAACCAAAAAATGCACCCAGGGATGAAAGCCGGGAGGCAGCAAAGTAGCAGCTCCAGCACCAGCCCTTTTCCACGACAGCCGTTCCAGCAACGTAAGATACTCCAGTTAAGAAAACATAAGCCCTGCTCTGCGCCCGATGAGCAAGGCGTTAAAAGCGGGGTTGAAAAACGATTATCCTGTACCGCGCACGGTCTGCACCATGCGGTCATGCCCGCCGGGCTCCAGTGCTTTACGCAGGCACGAATGTGGACATCGACCGTGCGGTCTTCCCAATACACGTTAGTTCCCCAGACGTGTTTAACAGCTGCTCGCGGCTTCACGCCGCTCAGGATGCGTCATAAAAAAGTGCAGCAGTTTAAATTCTGTCGGCCCCATCTCCAGCGGCTCTTCGCCCGCCATCACTCGGGGAGATGTCGGGTCGAGACTTAATCCCTGCATCTCAATCACCTCTTCCACCGCCATTGGGAAATACGGCGCATTACCGCTTTGATTCGCGCCACCAGCTCCTTCGGCGAAAACACGGCTTGGTGATATAGTCATCCGCGCCGGTTTCAGGCCGCGCACGCGATCTTCTTCTTCCCCTCTGGCGGTCAACATCACAACTGGAATATCCCGGGTCATCGACTCGCGCTTGAGGTGTTTGATGAACTGGATACCGGAGCCGCCAGGTAACATCCAGTCGAGGAGAATTAAAATCCGGCCAGGGTTCATTCAGTTTGATTCACAGCACTGTCATAATCTTTCCGCTTCGACCGGCTGAAGCCATTTTGTTCGAGCACGAAGCAGACCATTTCGCGAATTGGAGCTTCATCTTCTACGACCAGAATTACGTCTCGCCATGATTTGCCCTGTTGTAATAAATAGGTTGCGATCATTAATGCGACGTCATTATGCGTCAGATTTATGACAGATTTATGAAAAGCCTCGTCGCACATATCTTCAGGTTATTGATTTCCGTGGCGCAGAAAAAAGCAAATGCACATTCGTTTGGGTATAATCGCGCCCATGCTTTTTCGCCAGGGAACCGTTATGCGCATCCTTCACACCTCAGACTGGCATCTCGGCCAGAACTTCTACAGTAAAAAGCCGCGAAGCTGAACATCAGGCTTTTCTTGACTGGCTGCTGGAGACAGCACAAACCCATCAGGTGGATGCGATTATTGTTGCCGGTGATGTTTTCGATACCGGGCTCGCCGCCCAGTTACGCCCGCACGTTATACAACCGTTTTGTTGTCAATTTACAGCAAACTGGCTGTCATCTGGTGGTACTGGCAGGAACCATGACTCGGTCGCCACGCTGAATGAATCGCGCGATATCATGGCGTCCTCAATACTACCGTGGTCGCCAGCGCCGGACATGCGCCGCAAATCTTGCCTCGTCGCGACGGGACGCCAGGCGCAGTGCTGTGCCCCATTTCGTTTTTACGTCCGCGTGACATTATTACCAGCCAGGCGGGGCTTAACGGTATTGAAAAAACAGCACATTTACTGGCAGCGATTACCGATTATTACCAACAACACTATGCCGATGCCTGCAAACTGCGCGGCGATCAGCCTCTGCCCATCATCGCCACGGGACATTTAACGACCGTGGGGGCCAGTAAAAGTGACGCCGTGCGTGACCATTTATATTGGCACGCTGGACGCGTTTCCGGCACAAAACTTTCCACCAGCCGACTACATCGCGCTCGGGCATATTCACCGCGCACAGATTATTGGCGGCATGGAACATGTTCGCTATTGCGGCTCCCCCATTCCACTGAGTTTTGATGAATGCGGTAAGAGTAAATATGTCCATCTGGTGACATTTTCAAACGGCAAATTAGAGAGCGTGGAAAACCTGAACGTACCGGTAACGCAACCCATGGCAGTGCTGAAAGGCGATCTGGCGTCGATTACCGCACAGCTGGAACAGTGGCGCGATGTATCGCAGGAGCCACCTGTCTGGCTGGATATCGAAATCACTACTGATGAGTATCTGCATGATATTCAGCGCAAAATCCAGGCATTAACCGAATCATTGCCCTGTCGAAGTATTGCTGGTACGTCGGAGTCGTGAACAGCCCGAGCGTGTGTTAGCCAGCCAACAGCGTGAAACCCTCAGCGAACTCAGCGTCGAAGAGGGTGTTCAATCGCCGTCTGGCACTGGAAGAACTGGATGAATCGCAGCAGCAACGTCTGCAGCATCTTTTCACCACGACGTTGCATACCCTCGCCGGGAGAACACGAAGCATGAAAATTCTCAGCCTGCGCCTGAAAAACCTGAACTCATTAAAAGGCGAATGGAAGATTGATTTCACCCGCGAGCCGTTCGCCAGCAACGGCTGTTTGCTATTACCGGCCCAACAGGTGCGGGGAAAACCACCCTGCTGGACGCCATTTGTCTGGCGCTGTATCACGAAACTCCGCGTCTCTCTAACGTTTCACAATCGCAAAATGATCTCATGACCCGCGATACCGCCGAATGTCTGGCGGAGGTGGAGTTTGAAGTGAAAGGTGAAGCGTACCGTGCATTCTGGAGCCAGAATCGGGCGCGTAACCAACCCGACGGTAATTTGCAAGGGCCACGCGTAGAGCTGGCGCGCTGCGCCGACGGCAAAATTCTCGCCGACAAAGTGAAAGATAAGCTGGAACTGACAGCGCGGTTAACCGGGCTGGATTACGGGCGCTTCACCCGTTCGATGCTGCTTTCGCAGGGGCAATTTGCTGCCTTCCTGAATGCCAAACCCAAAGAACGCGC'..b'CACCAATAAACGCCGAGAGGATCTCGCACTTGCGGGTGACAAAATCCAGCTTCAGCATCTCATCAATTTCAGTCAGGCTGAATTCCGGCAGGTCGTGCGGAAAAAACAGCCCCTGATTTTTGCCCAAACCCCTGGGTTACGCTTGCGCAAAGCTGACCTGCCTCGTTGTGATCTTTCAGATTGAGGTTTCATTTAGTTTTCCAGTACTCGTGCGCCCCCCGTATCCAGCCGGCAAATATGACAAAACCTTCCTGATTTTGCAGGTAGTTCTTACCCAACCAGTCGGCAACGCGCGGGGCGGTTTCCGGCTTGTCACACAGAGCGAACAAGGTCCGGGCCGGAGCCGGAGATACCGCTCGCTACCGCGCCATTTCCGCGACCGCCTGCCGCGCCTGCCGGAAGCCTGGCAGTAACCGTTCACGGTAGGTTCACGCGATAACATCTTTTCATACAGCGTTCGCGGCAAGCTCAGGCTGACGGGAATAGCAGGCGTGAATGAAGCCTGCCAGATGTCGCCCGTGCGCAATGCAATCCTGGCGCGATACTGCCCCGGTAAAATAGCCCTGGCTTTTCCGTCGAGACTTTAATCCCCGGATACGCCAGCACCCACAGCCACTCATCCAAACCTGGCACTTGCTGGCTGATGATGTCGTTTTCTTCGATCATCAACTGCATACCACCGAGAAAACACGGTGCCACGTTGTCGTAATGAATGCTGCCGGAGATACGGCCTTCCAGCTCGCCCATCAAAAGCCAGCGAACGAGTGTCATTAAGCGGCTTGCCGCAGTGTTCAATTTCATCCCATCAGCGCCGCGACCACGAAACAGGCACTGGAGCCTAAGCCCGAACCGATCGGCATATTCTTTTCCAGGGTCATCGCCACTGGAATTTGCTTACCCAGTTCCTGGCAAAAACGCCTCCCAGCACTGATAAACGATATTTTCCCGTGGTTTCTGACGGCAGCCTTATCCGGGCAAAGCGTCCGAGGTTGTTGAGACTGAATGTCTCTGCCGCCTCAACCGTGACTACATCTCCGAGCAATGCACCATCAACAGGTGTCACCGCCGCCCCGAGCACATCAAACCCGACGCTCATATTGGCACTGGAAGCCGGGGCATAAACTTTAACCATTTTCAGACTCCTAACTTCCATGAGAGGGTACGTAGCAGATCAGCAAAGACACCGGCAGCTGTAACCGTCAATTTGCCCGCACCATATCCGCGCAGTACCAAACGGCAAGCGGCTGATAATAGTGGCTTAAGAGCCAGGGCGTTTTCGCCATTTTTCACTTTGAACAGCGGATCATTACCATCCACTTCGGCAATCTTCACGCGGCAGACGCCATCTTCATCAATATTGCCAACATAGCGCAAAACCTTTCCCTTCATCACGGGCCTTCGCCACGCGCGCGGCAAAGAGATCGTCGAGTTGTGACAGATTCGCCATAAAAGCGGCAACATCACCCTCGGCGTTAACCTCTGCGGGGCAGCACAGGTTCAATTTCAATATCCGCCAGCTCCAGTTCACTCCCGTTTCACGAGCGAGAATCAATAGTTTACGCGCCACATCCATACCAGAAAGATCATCTCGCCGGGTCCGGTTCGGTATAACCCATTTCCCGACGCAGCGTGGTCGCCTCGGAGAAACTCATGCCTTCGTAAACTTGCCGAAGATATAAGAAAGCCGAACCAGACAAGAATGCCGGAGAACTTCATCAATTCATCACCTGCATTGAGCAGATTTTGCAGGTTCTCAATAACCGGTAATCCAGCCCCAACGTTGGTGTCATAGAGGAATTTACGCCGCGATTTTTCCGCCCGCATAACGCAACTGATGGTAGTAATCCATCGACGAGGTGTTTGCCTTTTTGTTCGGCGTGACAACGTGGAAACCTTCGCGCCAGGAAGTCGGCATATTGATCCGCCACCTGCCTGGCTGGAAGTGCAGTCAACAATGACCGGGTTTCAGCAGATGATATTCTTTTCACAAGGCGAGTTAGCGCCCGGGATAAACGGCTCTTGGCTTGCGCCAGTTCTTCCTGCCAGTTTTCCAGATTAAGGCCCATGTAATTGGTGAGCAGAGCCTTCGAGTTGGCAACACCGCAGACACGTAAGTCGATTATTTTATTCTTCAGCCCAGCTTTGCTGACGCGCTTCAGTTGCTCCAGCAGCGGCACCGCCAACGCCACCGACGCCAATCACAAACACTTCGATAACCTGATCGGTATTGAACAGGCATCTGATGAGTAACGCGCACGCCAGTGGTCGCATCATCGTTATTTACCACGACACGAGATTGAGCGTTCAGAAGATCCCTGAGCAATGGCGACAATGTTGATATTTGGCGCGGCCAGGCGGCAAAGAATTCTCGCCGAGATCCCACGCAAGGTGCGCATACCATCACCTCCCACGAGATAAATGGCCAGCCGTTCCGCACTGCCAGCGGCTCCCAGTAGCCTTCTTTCAGTTCCAGGTAGAACTCTCCTGGCATGCCCGTTCAGCTCGCACACAGTCGCTTTGTGGAACGCAGAAACTAATGCGTATTCGGAAAGATGATTGCGTAATCAGCCACACGGAAATACCGGGCGCGTGACATCGGCTGCAAAGCGCGCCGCCGCCATGCCGACCATCCTATCATCCCCGGACCAGAACGCTGAAACATGCCATGTTAATTCAGATTGGAAATGGTTCCCTTGACCGGTAATTCGTCTTCAACACGGCTGGCACCAATTAGCGTACCTGGTGCTTGAGGATTTCCGGTATTTTTTAATCAGGCAAAGGGATCTGGAACTGGGCGATGGGGGTAATGGTGCGGGTGAAGAACTTTAGCGCCGAAAGTAGGAAACCCATCGCTTCCTGGTAGGAACATCGACTTCAACAACCTCGCATCGGGGCCACCTGACGCGGGTCGCAGGTATAGACCCCCGTCAACGTCCGCCAAATCTCGCAACAATCGGGGCCCGTAAACAGGCAGCCAGCACCGCAGCAGAAGTAGTCGGAACCGTTGCGTCCAAGCACCACCAGTTCGCCTTTTTCATTACCGGCGGGGGAACCTGCCATCAGCACGCATGTGATCAGCCGGAATGCAGGGCTTGCCGCAATTAGGCGGGTGGACTCAGGAAATCGACGGTAGATTCGAGGTAATGCCCCACCGCCAGCAGTTTTTCGACCGGATCGATAACCTAAGTACTTGTGACGCCGGCGCCGTCTATACGCCGGCATAAATGGCGAGCGACATTTCTCGCCACGGCCAAAATCGAGCGCCAGCGTTTGATGCTAATCCGGCACTGCCCAACAAACTATTGCCATGGGCAGACATGTTTTATTGGGCCAAATTCCTGATCGACGAAAGTTTTCAATGCGCCAGCGGGAACCCCCGGCGGGGCGGCGGCGGTCTACCAGGTCAAAAGGTATCGGCAAAAAATACGTTGGCCATCGCGATTATTGGTAAAGCATCCTGGCCCCTAAATGGTATTTTGTCAATTCATCGACACCAAGGTGTTGGTGATTTTTGCGGGCGGGTCAGAGAGGGACGGTGGGCCTACCTGCCTCCTGCCTTCGGCTCGGCTTTCTAGAATATCGGCAAACACGCGAAAAAACGTTCTGCATTTGCCACTGATGATACCGCCCGAAACTTCAACACTCGCATGGTGTTTACCTCGTTACCTTTGGTCGAAAAAAAAAGCCCCGCACTGTCTAAAGGTGGCGGGCTTTTATTACATGTGTTTCCGTACGCGTACGGCCCCGCTACCGATACCTGTGGTAATCGGTGAATGTGGGGGTATACGGTGGTGCTATCGTTTTCATGGATGTTGATGAATCTCTGGTATTTTTATCTGTCGGTGCGCTAGGCCTATATTGGTTAAAAATATTTGTGGTTCCGAGTCAATAAAATTTTTAATTTACCACGGGGCCCAAGGAAACCAGTTCAATAAACATGCTATCAGACACCTTTTTTTAGATCCACC\tdp:i:14\n+P\tcontig_1\tedge_1+\t*\n' |
| b |
| diff -r e27815e82dd4 -r 276f5d8712d5 test-data/result1_assembly_info.txt --- a/test-data/result1_assembly_info.txt Wed Jun 30 20:02:51 2021 +0000 +++ b/test-data/result1_assembly_info.txt Tue Nov 23 08:35:32 2021 +0000 |
| b |
| @@ -1,2 +1,2 @@ #seq_name length cov. circ. repeat mult. alt_group graph_path -contig_1 418805 15 N N 1 * *,1,* +contig_1 419576 14 N N 1 * *,1,* |