# HG changeset patch
# User dfornika
# Date 1562630547 14400
# Node ID 41acae990b9b016a4bf94b84e813178f40dc7da2
# Parent  7a86e6e73d626bdb96dae313d5b7b7ee1668c66b
planemo upload for repository https://github.com/phac-nml/mob-suite commit acb6fcb33c5a021b8e1f9946e28d443f6a494b1a-dirty

diff -r 7a86e6e73d62 -r 41acae990b9b mash_dist_from_mob_db.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/mash_dist_from_mob_db.xml	Mon Jul 08 20:02:27 2019 -0400
@@ -0,0 +1,59 @@
+<tool id="mash_dist_from_mob_suite_db" name="mash dist" version="@TOOL_VERSION@+galaxy0">
+    <description>determines how well query sequences are contained within a pool of sequences.</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <requirements>
+        <requirement type="package" version="@TOOL_VERSION@">mash</requirement>
+    </requirements>
+    <version_command>mash --version</version_command>
+    <command detect_errors="exit_code"><![CDATA[
+        #set $query_name = $query.element_identifier
+        cp '$query' '$query_name' &&
+        mash dist
+             '${reference}/ncbi_plasmid_full_seqs.msh'
+             '$query_name'
+             > '$output'
+    ]]></command>
+    <inputs>
+        <param name="reference" type="select">
+            <options from_data_table="mob_suite_databases">
+                <validator type="no_options" message="No MOB-suite databases are available." />
+            </options>
+        </param>
+	<param name="query" type="data" format="fasta" label="Assembly" help="Assembly"/>
+    </inputs>
+    <outputs>
+        <data name="output" format="tabular" />
+    </outputs>
+    <tests>
+        <test>
+            <param name="reference" value="plasmids.msh"/>
+            <param name="query" value="plasmid_38.fasta"/>
+            <output name="output" file="mash_dist_plasmid_38.tsv"/>
+        </test>
+    </tests>
+    <help><![CDATA[
+Description:
+
+  Estimate the distance of each query sequence to the reference. 
+  Both the reference and queries can be fasta or fastq, gzipped or not, 
+  or Mash sketch files (.msh) with matching k-mer sizes. Query files can also 
+  be files of file names (see -l). Whole files are compared by default (see -i). 
+  The output fields are [reference-ID, query-ID, distance, p-value, shared-hashes].
+  ]]></help>
+    <citations>
+        <citation type="bibtex">
+@article{ondov2016mash,
+  title={Mash: fast genome and metagenome distance estimation using MinHash},
+  author={Ondov, Brian D and Treangen, Todd J and Melsted, P{\'a}ll and Mallonee, Adam B and Bergman, Nicholas H and Koren, Sergey and Phillippy, Adam M},
+  journal={Genome biology},
+  volume={17},
+  number={1},
+  pages={132},
+  year={2016},
+  publisher={BioMed Central}
+  }
+	</citation>
+    </citations>
+</tool>
diff -r 7a86e6e73d62 -r 41acae990b9b test-data/mash_dist_plasmid_38.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/mash_dist_plasmid_38.tsv	Mon Jul 08 20:02:27 2019 -0400
@@ -0,0 +1,49 @@
+pBC13Kox003_2|10	plasmid_38.fasta	0.0623675	0	156/1000
+pBC15Kox001|17	plasmid_38.fasta	0.0730018	0	121/1000
+pBC15Ror002|11	plasmid_38.fasta	0.0848014	0	92/1000
+pBC15Rpl001_1|4	plasmid_38.fasta	0.132399	1.66543e-211	32/1000
+pBC15Rpl002|3	plasmid_38.fasta	0.126974	5.49483e-240	36/1000
+pBC15Rpl020|3	plasmid_38.fasta	0.126974	5.5993e-240	36/1000
+pBC16Cam003|37	plasmid_38.fasta	0.112887	0	49/1000
+pBC16Cfa001|5	plasmid_38.fasta	0.219531	2.12229e-30	5/1000
+pBC16Ecl021|6	plasmid_38.fasta	0.210897	1.1394e-36	6/1000
+pBC16Eco063|12	plasmid_38.fasta	0.0824989	0	97/1000
+pBC16Ehe001|9	plasmid_38.fasta	0.0637124	0	151/1000
+pBC16Ent002|10	plasmid_38.fasta	0.0623675	0	156/1000
+pBC16Kox022|30	plasmid_38.fasta	0.0693234	0	132/1000
+pBC16Kpn002_1|35	plasmid_38.fasta	0.0759181	0	113/1000
+pBC16Rpl007|34	plasmid_38.fasta	0.0693234	0	132/1000
+pBC16Rpl014|32	plasmid_38.fasta	0.0730018	0	121/1000
+pBC16Rsp003|21	plasmid_38.fasta	0.0690061	0	133/1000
+pBC16Rte001|36	plasmid_38.fasta	0.102268	0	62/1000
+pBC16Sma001|16	plasmid_38.fasta	0.0621044	0	157/1000
+pBC16Sma049|15	plasmid_38.fasta	0.0621044	0	157/1000
+pBC16Sma053|20	plasmid_38.fasta	0.0716227	0	125/1000
+pBC17Cfr022|23	plasmid_38.fasta	0.0709514	0	127/1000
+pBC17Ecl001|28	plasmid_38.fasta	0.0712856	0	126/1000
+pBC17Ecl003|29	plasmid_38.fasta	0.0744324	0	117/1000
+pBC17Ecl013|23	plasmid_38.fasta	0.0709514	0	127/1000
+pBC17Eko002|23	plasmid_38.fasta	0.0709514	0	127/1000
+pBC17Kpn024|1	plasmid_38.fasta	1	1	0/1000
+pBC17Kpn045|7	plasmid_38.fasta	0.0608169	0	162/1000
+pBC17Kpn050|8	plasmid_38.fasta	0.0600659	0	165/1000
+pBC17Psp001|9	plasmid_38.fasta	0.0637124	0	151/1000
+pBC17Ror004|27	plasmid_38.fasta	0.0696435	0	131/1000
+pBC17Rpl001|33	plasmid_38.fasta	0.0709514	0	127/1000
+pBC17Rpl002|31	plasmid_38.fasta	0.0677629	0	137/1000
+pBC17Rpl006|27	plasmid_38.fasta	0.0696435	0	131/1000
+pBC17Sma026|15	plasmid_38.fasta	0.0621044	0	157/1000
+pBC18Cfr011|25	plasmid_38.fasta	0.0686914	0	134/1000
+pBC18Eas001|38	plasmid_38.fasta	0.0364545	0	303/1000
+pBC18Ecl022|13	plasmid_38.fasta	0.0642645	0	149/1000
+pBC18Ecl030|24	plasmid_38.fasta	0.0709514	0	127/1000
+pBC18Ecl032|14	plasmid_38.fasta	0.0677629	0	137/1000
+pBC18Ecl034|23	plasmid_38.fasta	0.0709514	0	127/1000
+pBC18Ecl035|18	plasmid_38.fasta	0.0730018	0	121/1000
+pBC18Eco209|26	plasmid_38.fasta	0.0674584	0	138/1000
+pBC18Eco240|22	plasmid_38.fasta	0.0702918	0	129/1000
+pBC18Kox006|18	plasmid_38.fasta	0.0730018	0	121/1000
+pBC18Kox008|19	plasmid_38.fasta	0.0730018	0	121/1000
+pBC18Kpn061|17	plasmid_38.fasta	0.0730018	0	121/1000
+pBC19Ecl005_2|22	plasmid_38.fasta	0.0709514	0	127/1000
+pWA18Eco007|2	plasmid_38.fasta	1	1	0/1000
diff -r 7a86e6e73d62 -r 41acae990b9b test-data/plasmid_38.fasta
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/plasmid_38.fasta	Mon Jul 08 20:02:27 2019 -0400
@@ -0,0 +1,4 @@
+>BC19A327A_unicycler.fasta.fasta|38_length=14959_depth=3.63x_circular=true
+ATGAACCTCCAGCATGAGCGGATCGACGCCCTGTGCCAGCAACTCAAACTCGAACGGGTGGCAACGCATTACCCCGTCCTGGCGCAGCAGGCGGTGCGCGAGGACTTCAGCTTCACCGACTTCCTGGAACACCTGTTGCGGCATGAAGCGGGGTGTCGCCAGCAGCGCAGCCGCGAACTGCTGACGCGGATGGCTTGCTTCCCGGGCATCAAGACCCTGGAGGACTATGACTTCAGCTTCAACCCCGGCGTGCCCAAGGCACTGGTGCAGGAGCTGGGCAGTCTGGCGTTTGTCGAACGGGCCGAGAACGTGGTGCTGATCGGACCCTCTGGCATCGGCAAGACCCACCTCGCCATCGCCTTGGGTTACAAGGCCGCGCAAGCCGGGGTCAAGACACGCTTCATCACGGCAGCCGACCTGATGCTGCAACTGAGCACGGCGCAGCGACAAGGGCGGCTGAAGGAATACTTCAACCGCGCCATCCTCGGTCCACGGCTGCTGGTGATCGATGAGATCGGCTACCTGCCTTTCGGACGCGAGGAAGCGAACCTGTTCTTTCAGGTGGTGGCGAAGCGCTATGAGAAAGGGGCGATGATCCTGACCTCGAACCTGCCGTTCAGCCAGTGGGCCGACGCGTTTGCCGGCGATACCACCCTGACAGCCGCGATGCTGGATCGGCTGCTGCACCATGCCCATATCCTGACCCTGAGCGGCGAAAGCTACCGCTTGAAGGACAAGAGGAAGGCGGGAGTGGTCAGGAAAAATTCCAAACCCGAATGATCCAGGTGGGTCAGTATTACTTTGGTGATTCAGGGGTAAAGTGGGTCAGTTTTCAGTTGGTGTTGACACCGGCGTACCCTCGGTGCTATCTTCGCGCCCCAATAGTCGGGGCTTGGCCAGGACTTCCTGAGGCCGTCCGTAACGTGGATGCCGAGGTCAGGCGAGGTGGCCGACCCATGAACGCCGACCTGATTCGTTTTTCAATAGCGCTGGACGTTGTGGTGCCAGGGACTTACCAACCCGATGTGTGCCCATCCGGGGCAGTTACAGCCGTTACAGCCTCTGGAGAGGGAGCGGCTTGCCGCTCGGTGATAATCCCAGCTGTAGCGGCCTGATTACATCCGGCCGCTACACCTAGCTCCACCTTCAAACAAGGAATATCGTTGATGTCACTGTATCGCCGTCTAGTTCTGCTGTCTTGTCTCTCATGGCCGCTGGCTGGCTTTTCTGCCACCGCGCTGACCAACCTCGTCGCGGAACCATTCGCTAAACTCGAACAGGACTTTGGCGGCTCCATCGGTGTGTACGCGATGGATACCGGCTCAGGCGCAACTGTAAGTTACCGCGCTGAGGAGCGCTTCCCACTGTGCAGCTCATTCAAGGGCTTTCTTGCTGCCGCTGTGCTGGCTCGCAGCCAGCAGCAGGCCGGCTTGCTGGACACACCCATCCGTTACGGCAAAAATGCGCTGGTTCCGTGGTCACCCATCTCGGAAAAATATCTGACAACAGGCATGACGGTGGCGGAGCTGTCCGCGGCCGCCGTGCAATACAGTGATAACGCCGCCGCCAATTTGTTGCTGAAGGAGTTGGGCGGCCCGGCCGGGCTGACGGCCTTCATGCGCTCTATCGGCGATACCACGTTCCGTCTGGACCGCTGGGAGCTGGAGCTGAACTCCGCCATCCCAGGCGATGCGCGCGATACCTCATCGCCGCGCGCCGTGACGGAAAGCTTACAAAAACTGACACTGGGCTCTGCACTGGCTGCGCCGCAGCGGCAGCAGTTTGTTGATTGGCTAAAGGGAAACACGACCGGCAACCACCGCATCCGCGCGGCGGTGCCGGCAGACTGGGCAGTCGGAGACAAAACCGGAACCTGCGGAGTGTATGGCACGGCAAATGACTATGCCGTCGTCTGGCCCACTGGGCGCGCACCTATTGTGTTGGCCGTCTACACCCGGGCGCCTAACAAGGATGACAAGTACAGCGAGGCCGTCATCGCCGCTGCGGCTAGACTCGCGCTCGAGGGATTGGGCGTCAACGGGCAGTAAGGCTCTGAAAATCATCTATTGGCCCACCACCGCCGCCCTTGCGGGCGGCATGGATTACCAACCACTGTCACATTTAGGCTAGGAGTCTGCGCGGCAGAGCCGTGTGACCGGTTTTCTGTAGAGCACTGACGATGGCGGCGGCGCTCTCTGCAATTGGCAAGGCGTCGGCGCCAAGGATACCAATCTTGCGGCGCGCGGCGTGTTATGACGACTGGGGTGCATTTGAGCCGCCCCATTTAACCTTCGCCCTCACAGATACGCCATTCGCCTCAGATTTAGCGCCATGCAGACGAGCTTCCACTCGGCTTGCACCTTGTCCAGGCCCCTCATGCTGAACTGACGCAATCCCATCACCGCCTTGATCCAACCATTCGGAGCCTCCACGATCGACTTGCGCCGGCGGTAAGCTGCATCGCCTTGCTCCGTTTTCAATTTCGCCGCAATCGCCGCCGTATGCGGATGGGTCTTGGCATTGACCTTGGCATCTTCACGTCCCTCGCGGCCGAGGGCAACGATGACATCGCCGTGGTGATCGGCGACCTTTGCCAGAACAGCCTCACTACGGAATCCCGCATCCGCCAGCGTCTGGGCCGGCATTTCTCCGGTGTTGGCCTGAACTGCTGCCAGCATGCCCAGCAGCGCCTGACTGTCCGCGGCGCAGTTGGTCAACTCCGCCGCCACGATGATCTGGTGCTCGGCATCGACCGCTGTGTACCCGTTGTAGCTCTGCTCGGAGCCACCACCGGCGTGTTTCATGATCCGGCTGTCCGGATCGGTGAAGCTTTCCTGATCACGGTCATCCGGCACACCAAACTCGCGTTTGTACGAGCCACCGCCCTTGTCCGAGCCATCCGGATGGCGAGGCCGGCGGCCATCGTCTTCGCTGCGCCCCCGGGCCTGGTCCGCTTCACGCTGGCGCGCTTCCAGGCGCGCCTTTGCCGCCTGGATCGCCTCCAGGCGCTTCTCGCGGCGAGAAATCTCGGCAGGAATGTCCAGCTCCGGCTCGTTACGCTCCTGGTCGTCGGTAGCCTTGGCGCGATCAAGCAGCGCCTTGATCTCGCAATGCAATTCGTCCTCGGCCGGCTTCATGCGCTTATAGCTCATCGCCTTGTGGCGGCTGGCGTTGGCTTTTACCTTGGTGCCGTCGACCGCGATCGTGCCAAGCTTCACCAGCCCACATTCGCGCGCCAGTTGCACCACCTGAACGAACAAATTCTCAAGCTCGGTCAGGTGTAGGGCACGGAAGTCACTCAGCGTGCGGTGGGCCGGGAAGTTTCCAGCGGCCAGCACACGCAACGCGACATCCTCGTACAGCTTCCTGGCTAGTTTGCGCGAAGAGAAGACGCCGCTCGCGTAACCATAGATCAGCACTTTGACCATCATCGCCGGATGAAACGGCTGATTGCCCGGACCACCGCCGGCATACCGGGCGTGGAATGCGCTCAAGTCCAGCGTATCGACAGTCTCGCTGATGAAGTAGGCAAGATGCCCTTCAGGTAGCCACTCTCCCAGAGAAGGGGGCAGCAGATAGGATTGGTCGGGTCGGTAAGGAAGGTAACTGGCAGCCATCCCCGTATCGTCCTCGATCTTCCGCCGATTTGGCTTCTGCCGCGCAGGCTCCTAGGCCACCGTAGCTAAACATACGAGAAAAACCGCTTCTTGAGCGCTCTCTGAGACCACCTTGCCGACAACGCAGAAACGGTTGCGGAAAAATCGGCGTTTCCGGCGTACGCCACCCGACCTGGACGAACTATTGCGGACCTGGAACTGGAGTAGCGGAATTCCCCGGGGTTTCAGCGTCGCGCCACAGCGCCTCAGATAGATGCGGTAGCCTTTGGCGGGTCGTCATGCCGCGGACCACCCCCCCAAAAAATTCCACAATGCGGAATGGCGGAATTTTCTGGGGTTCCCGCTTACCCCCCCAGTAGAAGGTGAAGTCGATGGTTTTGCATTCTTATTTCTGTACTCTATCGATTCTTCAGTAGCAAACTGAACAAAGTCTCCGACAGAGAAGTTAGGACATTTTTTCTGTCTTTTGAAAAAATCATATTGAATAACAGCGGCTAAATAGCCATTACAAAAACCCCAAGCTCCTTTTTCTTTTATATCGTTTCGTGCACTATCACAATGACTACCCCATTCTGACATGGTAGGGTGCGCTGCATCAATATATTTACTGCCAGGGATATTAATAGGCATATCAAAAATATTATTTTCAGCATTAACGGAAGAAGATAAGCTGATTAAATACAGAGTAAAAACAGACGCAACAAGTGAAAGTCTCATTATAAAAACCTCTTATTCATCCCAAGTCTATAATATTTACTACGGCTAATATTTAAATTTACCCATGGTTTTAAACTTGCATCAGATGCAATAGATATTCGTCCCTTTGGGCGACCTCCTCCTCGGCTTTTTTTTCCTCTAACTGATTGAATCTCACTAGAATGAGTACGAGATACATAGGCACCAAATGTTTCCTCACTAAATTTTGACTTAGTCCATTTAGCAATGCTCTTGGCTATACCATTAACCTCATTTTCATCCAGAGGCGCTGCAAATTGCAGGTTATAAGCGTTGGCACGTTCGTAGCAGGCTCTTAACCACTGTTCATAATCAGGCCAGCCCTGACGAATGGCGCGATAAGCCCATTTACGGGTTTTATCGAACAGGGTGCAGTTACGGCCTAAACCGTAGTCGGGTAGGATTTCTTTGTCGTTCGCTGCACTCAGGTCAAGTGAGTCTGCTAACCAGTCGAGCGTGTAGAGTTCCGGTTGCCACACGGCAAGCTGCCAGTGGTCATGGTTCGGATTTTTGCAGATTAACCCTGAATAGCCAGTGTCAGCGTCCAGTTTTTTACACAGCGCACGCTCAACCGCTGCCGCATACTTCAGCGGCTTAATTTTTCCGTCAGGTGCCGTGCGCACCGCTGTTTTCAGCGCATACAGTAAGTGGGCATGTCCGTTTTCCGGATTCATGATGGTCAGCGTTGGCGCAGGTGCGTTCCGGTCGCTCCAGTCTATCGCCGCGCCGGGGCGGTCAACGTCAAAACCGAGCCAGAACATCGCGTGTGGCTGGTTGAACTGGATGTATTTCGCAAGAATGGCGCGCTCTTTCCCGGCAATGCGTACTCCGAACTGGAGTTCGTCGGTAAAATAGGGTTTGCGGGGAAGCCGCTCGTTAAAAAGGTCGAGTGCCTGGTTACTCAATCTCGCCTGCGCTTATGGCGGGCTGTTGTTTCGCACGGTTCATGTGCTAGTATCCTTCTTAGGTTTTGTGCCTGCGCCCTCGTTAATCATGTCCTTCCGCCAAGTCGAGCATGATTACGGGGGCGTCGTCTTTTCTGCCGCTTAACGTTACACACCCCGCCGTATTTTGTCACCTGTCACCGTCAGTTATTGCCTGAAGCAACAGACCATTACCTTCCGGGTAAAAAACGCGTACACTGGCAACACGTGCTATATACACGTGTAAAAATCAGGAGATCATCATGCCCGTATCAGCGATGCGCCATAAAAAAACCGTCAGTGTGACAATCGAGCCTGCGCTTTTGCATCAGGCCCGCGAAGCCGGGATTAATCTGTCTGCCACGCTCACCACCGCCCTGAAACATCAGATCCGCGAGTCAGAAGCGGAGCGCTGGAAACGCGCCAACCGCAAGGCAATCCAGGAGCTCAACCGTATTACGGACGAGCACGGCTTACTCTCTGACGATCACAGGACGTTCTGATGCAGTTCATGGTTTACCGCAATAACAGCAACAACCGGGCTTATCCCTATCTGCTCGATGTACAGAGCGATATTATCGACGAACTGAATACCCGCCTGGTGATCCCGCTGTTTCTGCTGGATGAAGTGAATGGACGGCCCGCCCGCCGCCTGACCCCGGTGCTGAATGTGGACGGTGAGGATTTTCTGGTCATGACACATGAAATGGCCAGCGTTCGCCAGTCACAGCTCGGGGAAGAGGTGGTGAGCGTCCGGGAGCACCGGCAGGCCATCAAGAATGCGCTGGATTTTCTGCTCGACGGTTTCTGAGTTTACCTTTCCATCCCGTGATCGTGTCCCCGGCTGCGTCCGGGGGCAAATGAGCGCGTTTTCTGTCGTTCCTGTTTCTGCGCCAGCTCCCTGTCCAGTCTGGCTACCTGCGCGTCAAGCGGCTGACGGCTTCGGTTAAGCTCATGACCTGCTGCCGCAAGCTCTCCACCTGCCCGCTCAAGTGCTGACACGCCTGGTCGCTGCGCATCAGCGCGGCGGAAGTAGTGGTGAACATGGTCTGCAAGCTGTCGTAACTGGCCTGCCATGCCTGCTGTCGTGTCTCGTAATCGTCCTGTAAGCGCTCTAACGCACTCAGCAGCAGTTTTTCGGTCTCGGTCATGGATTTGCTTGTCCTTATCGCTAAAAACGCCGTATGGCGCTTCTGTGGCAACTGACGGGGCTATTTCGCGGTGTAGGTCACGACCTGTTTGTCGTTTTTCGAGGTGTACAGCTCGACGCCCTTCGCGCTCTTCGGCAGCACCACGTAATACTTGTTCTTCCGGGTGTCGTCCGTGAGTATTTCCACCCCCGCCCCCGATTTCGCTTTCAGGTCGGTAAGCTGCTGGCTGTAGCTGTTCATCTCGTCCAGACGTGAGGCGATGAGTGTCCCCTGAAACCACAGTATCCCCGACAGAATACCGATCAGCAGCACACCACAAAACAATATCCATATCAGCGCGATCGTGACCGAGCGCCGCAGCAGGGTTGTCTGCCTGACGTTCTGTTCGTGGATAGCGTCGCTGATGCTCTTCCCGCTTGATTTCAAGGCCTCGCTGATGGATTGCTCGAGCTTCACAAACTCGCTCTTCACGCTCTCCCCTGTACGCTGTGCCTGCTGCTTCGAGGTCTCTTCGAAGGCTTTCGCTAAATCTAAAATCCCGCTCATATAACGCCCCTTTTAACCGGATATTTCGTCCACCGTCCGGGTCGGCAATGCTGAGACTGCTTTTCGTTTCCCGCACCACCGTCAGCCCGCCGTTTTCCAGCGCCCTGACCACATTCTCACGGTTGCGGATCATACCCTGTGCCACCATCGTTTCCAGCGAGTCCGTAATGGCCTGCGCCGCCTTCTGACGGTCGCCGGGAAGGTCATTGCCCGGTGTCAGGGTGCGTCGTCGGGCAGGATCATGAGGGTCATCGAGGTTCAAGCGGTCATTGGTCAGAGTCTGCCAGGCGTTGACCCTGGGACGATCAGCCCGGTCATAGTAGGGTTGCAGGCGTTTTCCGCTCTGCAATTCGATGTTCGGGAACACAAAATTCAGCTCCAGCCTGTCCTTGTCCCGGTGCTCCACCCACAGACAGGCGTACTGGTCGCCGTCCAGACCGGGCAACAGTGTCTGCTCAAACTCATCCATCAGACGCACTTTCTCATCGTCAGGGAGGTTTTGTTCCCGGAACGACAACACCCCGGAGGTATAGGCGCGGGCAAACTCACAACCATCAATCAGTTGCCTGACACGCTCAGGCTCACCGCGCAGTACCACCGCTTTATCCCGATCACGTTCTTTTCCCAGCAGGTAATCCACCGGGCCACTGCCTGAACCCGCACCGCGGCTATGAATCTTGACGATCACGCTGTGTCTCCAGAAGCTCAGATAACTGGCGATCAAGGCTGGTCAGTACCGCCAGAAGAGAAACCTGCTGATGGGCCGAAAGCGAATCCAGACCATGCAGCTTACGGGCTATCTGATTGAGGTTATTGCCGATGCCGGTCACCTGACGAAGCAGTGCCGGATCAACGTCAGGCACACGCCGGCGACGCAATACATGTTCACCCAGACCGAGCGAACGTAACCATTCAGCGAGATGAGCACGATCACAACGTGCCAGCAGTCGCTCATGTTCACTCTCAGTCAGGCGGATTTTTATCTCTTTCGTTCGCTTGTCCATGACACTCCGCTGAGAAAACTTTCGCACCCAGAGTGCGAATTTTCGCAGTGGATGCCAGGGGTTTCGGGGGGCGGCGAGCCCCCTGAACCAGTCACAGAAGGAACCCTCGTAGAGGGGACGCTGTGTGTACTGGCTTATAGTGATTGATAAGTATGTCAGATTCTGTGCTGGCTGCAAAAAAAAAAGCCTTCTCTGGAGAAGGCTGTTATCTGATATAGGTTGTTTTTAGTCTCACAGAGAACATCTAGTGGATTGTTCTTAGCTTTAGCGATATCAGTGATATGATCAGCATCAGCATCAGCATCAGCATCATATTAGTTGATTGTATTTATTCATCATGCTGGCCATTATATGCTTTGAGCACCGTAGAATGGCTCTTCCCGCAAGTCCGAAGAATAATTAGCGCATGTTCAATGAGTTCTTTACTTCGTTGAGGACTAAACCATTCACCATTAAATTTACCCCCATGGAAAAGATTATTTCTAATTCTACAAATAAGAGAAAAAACAAGCTCAGACTTATTTCTATGGTCAGGCAATACATTAGACCAACATAATAAACCATCTTTTAAAACTTGTTTTTTTGGTGGGTTGTTTATCAGGTATGATATTGACTCATTTAACTCTTTACTTGGACTTTCAATCAATGAAACGAATTCACCAGCATACTTATACCAATCAGCTTCTACTCTAGTATTTGTGCCCTTACGAAATCCGGTAACCTTAAGACAATATTCATAGCGAGCAAATTCACGAAAAAAGTTATATCCTAAATAATCTAGTTCTAATGTAGATTGCTTCATAAAAACCTCATAAATGAAAAAATATGTAATTTAATTTATATTACACTTTTCCATTACAATAGATTCCAACACAAGAAAAGCAGGGCGCTGGCCCGGGGCAGGGACATTTTCATAAACATAAGCATTAGGAATAACTTTACCAGTAGGGGGTTCTAAGCGGGAATCCCAGAAAATTCCGTCATTCCGTATGATGAAAATTCAGTCGACTCCTCGCTTGACGTGACGAGCGCCAAAAGCCTGCCGCATCTGCCTGGCGCGCTCGAGCTCATCGCCATGCAAATACATCGACGTCGTGGCGATCGACGCATGGCGTAGGTTGTCGCGCACCGCGGTGAGCTGAGCTCCCCGGGCCAACGCATGGCTGGCATGACTGTGACGCATCCAATGAGGCGTGGCACGGCGCAGCTTTTCGGCGGCGACCGGATGATCGGCCTCAATGGCCTCAGCGGCTTGCGTAAAGAATCTTCGCAACACGCACCAAAGGTGAGGGCCGGTGATGCCGGCATTACCGTCTTCCCCAAGACTGCCCACCAGGGGCGTTTTCGGATTCCACCGTTCCCGGCTGACTGGCAGTTGACGCTGTGCCAAGTATTGGTCCAGCGCCGTATACGCGAGCGGCGGCAAGGCCACCTTACCTGGTTTGCCACCTTTGCCAACCAAATGCAGCCAGTGGTCACCGTGCTCGTCGAGGCGGACATTACCCAGGACGGCGCCGACCAGTTCGCTAGCGCGCAGGCCCGTGGCATAGCCGAAGTCGAGCATGAAGCGCAGGCGTTGTGCTGCCGGCTCGGACCAGCCGTAGGACCATTCCAGGCCGTCTGCAATGGCGCGCAGCAGTAGCCATTCTCCCTCGGTAAAGCCTCGCGCCGTATCCAGTGCGGGCCGCAAGGCGTGACCGCGTACCTTGACGCCGGCGAAAGGGTTGGCCAGCACATAGCGCTGCTCGATGAGCCACCGGAACAGCGCCGAGAGCACCGTCAGCGCATACGCTGCCGAGCGTGCGGACAAGCCGCCCGAGAAGGGGCGCCATTCCACCGAATCGCGTGGTCGAGGTGGCCCCACCCAACGCTCGCGCGGGGTCGGGTGCCGGACAAAGGCCCGGTACGCGATTGCATCGTCCGTGGTCAGGGATGATAGCGCCCGTCCGCGTTCGACGATGGCCCACAGGATTAGCCGCGCAGCCTCCTTGCGATAGGCGCGCTGTGTGGCGACAGTCTCGTGCAGCGCCAGCCAGGCCTGCACGGCCTCGTAGTCGTTGGTCGCATTCAGCGTGCAAGCGTTGCGCGGGGCCCGGAAATTGCCCTGCGAGCCGTCGACTTCGTTCGGCAGACGCAACTGCTCCCACGGCACGATGCCGCTGGGCTGAATAATCGGGATCAGGGCCCGGGCGCGCTCGGTGAGCTGCGGATGTGCGGCAAAGAAAGCCTCGACCTGCCGGGCGCCTGTCATGCCGAGTCCCTCGATGGCTTTCCACCAGCCACGCCGGCGGGGAATGCGCACGGTCAGCGCCGAGAGGGTGTGGATACCGTACGCCTGCAGTGCCCTGACGGTCCTCGGAGACAGCCACTGGTCGATGCTGTCGCTGATCTGGGGCTTCGGCGCCGGCAGCGTGGGCAAGAGCCGGATCGCGCGTTCGACGGCACCCGCGCGCCCCTGTCGCTCTTCGGGGGCGTGCTGGAACACGTCGGCCAGATCCGGCCGGTGGCGGCTGTTGGCGAAAACGATGAGCTGGCGGCGGATATGCCCCAGCATCCCTCGCGCTGATTGACCGGCGGCCTTGCGTGCCGCCAGGTAGTGTTCAACGGCCGCGCGAGAGCTGAGTCCCGCGTACCAGCCGCGCAAGGCAGCCAGCGAATCCGCATCGGGAAAGCCGACTGGGGTAGAACTCGAAGCCGTAGTCTGGCCCGTTTTCATATGGACAGGTTGCGATTCGAAAAGCGAGTAACGCGATAATAACGATTATTTCAGTAGAATCGAAAATGCCCCATGTTTCTACGAAACCTCAAGATAGCAAGAACGGGCCATGAGCAAGAAGAACAAGCTACTCAGCGTCCTATCCGACGCCGAACAGGAGGCCTTGTATGGCCTGCCGGAGTTCGATGATGCGCAGCAGCTGGAATATCTGGCTGTGACAGAAACCGAGTTGGCGCTTGCCAACAGCCGGCCCAGTCTTCATGCCAAGGTCTATTGCCTCTTGCAGATCGGCTACTTCAAGGCCAAGCATGCCTTCTTCAGTTTCGACTGGGACGAAGTCGAGGACGATTGCGCTTTCGTGCTGAGCCGCTATTTCCACGGCGAGGTGTTCGAACCCAAGGCGATCACCAAGCATGAACGCTACACCCAGCGCGAGCAGATCGCCAAACTATTCGGCTACTGGCCGTGGTCGGCCGCCTTCCTGCCGCAGCTCGAGCAGCAGGCCGCACGGACCGTGCGGCGTGACGTAACGCCGGGGTTCGTCGCCGCCGAGCTGATCGTCTGGCTCAATGAGCACAAGATTATCCGGCCCGGCTATACGACCTTGCAAGAGTTGGTCAGCGAAACGCTATCCGCCGAGCGCCGGCGCCTGGGCAATCTGCTGGAGCAAGCGTTGGACGAATCTGCCAAGGCCGCGCTGAGCCAGCTTCTGGTCCGTGATGACACCCTGTCGCAACTGGCGGCGCTCAAGCAGGACGCCAAGAATTTCGGCTGGCGCCAGATGGTCCGCGAGCGCGAAAAGCGCGCCACGCTGGAGCCGCTGCACGCAATCGCCAAGACACTGCTGCCTAAACTCGACGTCTCGCAGCAGAACCTGCTGTACTACGCGAGCCTGGCAAACTTCTACACCGTCCACGACCTGCGCAATCTGAAGGCCGATCAGACCCAACTCTACCTGCTGTGCTATGCCTGGGTACGCTACCGGCAGCTCTCCGACAACCTGGTCGATGCGATGGCGTACCACATGAAGCAGTTGGAGGACGAAAGCAGCGCTGGTGCCAAACAATCCTTTGCCGACGAGCAGGTGCGCCGTCAGCAGGAAACGCCGCGGGTAGGCCGCCTGCTGTCACTCTACGTTGATGATAGCGTGGCCGATCCCACGCCCTTCGGCGAGGTGCGGCAGCGCGCCTACAAGATCATGCCTCGCGATACGCTGCAAACCACGGCGCAGCGTATGAGCGTGAAGCCGGCGAGCAAGCTGGCCTTGCAGTGGCAGGCGGTGGACGGGCTGGCCGACCGCATGCGCCGCCATCTTCGTCCACTGTACGTTGCGCTCGACCTCTCCGGCTCCAATCCAGACAGTCCATGGCTTGCCGCGCTGGCCTGGGCCAAAGGTGTTTTTGCCAAGCAGCAGCGGCTGTCGCAACGGCCACTCGACGAGTGGCCCGCGGCGACACTTCCGAAACGCTTGCGGCCGTACCTGCTGACCTTCGACGCCGACGGTAAACCAACCGGCCTGCACGCTGACCGCTACGAGTTCTGGCTGTACCGCCAGATCAGGAAGCGTCTCCAATCGGGTGAACTCTACCTCGACGACAGCCTGCAACACCGGCACTTCTCAGATGAACTGGTTGAGATGGACAGGAAGATCGATGTGCTCGCAAAAATGGAGATCCCCTTCCTGCAGCAACCCGTCCATGCCCAACTCGATGCGCTGACTGCCGAACTGCGCACGCAGTGGCTGGCGTTCAACCGCGAGCTGAAACAGGGCAAGCTGACGCACCTCGAATACAACAAGGACACGCAGAAACTGACCTGGCGCAAGCCCAAGAGCGAGAATGAGAAAGCGCGCGAAAAGGCATTCTACGAGAAGCTTCCGTTCTGCGACGTGGCCGACGTGTTTCGCTTCGTCAACGACGAGTGCAAGTTTCTGTCGGCGTTCACGCCCATGCAGCCGCGCTACGCGAAGAAGGTCGCCGACGCTGACAGCCTGATGGCGGTCATCATCGCGCAAGCGATGAACCACGGCAACCACGTCATGGCGCGCACCAGCGACATCCCGTACCACGTGCTGGATAGCGGCTACCAGCAGTACCTGCGCCAGGCAACGCTGCACGCGGCCAACGACTGCATCAGCAACGCCATCGCCACGCTACCGATCTTCCCATACTACTCGTTCGACCTCGAAACGCTGTACGGTGCCGTCGACGGGCAGAAATTCAGCGTCGAACGGCCGACCGTGAAGGCGCGCTATTCGCGCAAGTACTTCGGGCGCGGCAAGGGCGTGGTCGCCTACACGCTGCTGTGCAACCACATCCCGCTCAACGGCTACCTGATCGGCGCGCACGACTACGAGGCCCACCACGTGTTCGACATCTGGTATCGCAACACGTCGGACATCATGCCGACCGCGATCACCGGCGACATGCACAGCGTCAACAAGGCCAACTTCGCCATCCTGCATTGGTTTGGCCGGCGGTTCGAGCCGCGCTTCACCGACCTCAACGCGCAATTGAAAGAACTCTACTGCGCTGACGATCCAGCACAGTATCAGGCGTGCCTGATTCGGCCAGTCGGGAAAATCGACTGCGATCTCATCCATCGCGAGAAGCCGAACATCGACCGGATCGTCGCCACACTCGGGCTGAAGGAAATGACGCAGGGCACGCTGATCCGCAAGCTGTGCACCTACACCACGACGAACCCGACGCGGCGCGCGATCTTCGAGTTCGACAAGCTCATCCGCAGCATCTACACGCTTCGCTACCTGCGCGATCCGCAACTGGAACGCAACGTGCACCGCTCGCAAAATCGCCTCGAGTCCTACCATCAGCTACGCTCGGCCATTGCCCAGGTCGGCGGTAAGAAGGAACTGACCGGTCGCACCGACATTGAAATCGAGATCAGCAACCAGTGCGCACGGCTGATCGCCAACACGATCATTTTCTACAACTCGGCAATCTTGTCGCGGCTGGTGACCAAGTACGAGGCGGCCGGCAACAGCAAGGCGCTGGCACTCATCACAAAAATTTCGCCTGCGGCATGGCGGCACATCCTGCTCAACGGGCACTACACCTTTCAAAGCAGCGGCAAGACGATCGATCTCGATGCGATCGTCGCAGGCCTGGAACTGGAGTGACGGAATTTTCAGCGGTTCCGTGTTAGCAGCAGTGTAAAACTGACCCACCCCAGCGAAGTAAAACTGATCCACCTGGGCTAGTTTGGCGGCCTTTTCGAGGCCGTCGATGTTGACCCAGGAGCAAACCGTGGAAATCAGAGTTCTTGCCCGACAGGGCCACTCCATCCGGCACATCGCCCGCACGTTGGGGGTCTCGCGCAATACCGTGCGCCGCTACCTCCGCGATCCGTCGGTAGCGCGATACCAGCCCCGTGAACCACGCCCCACCAAACTGGGGCCATTTGAATCTTATCTGCGGCAACGGGTCGAGCAGGCCCACCCCATCTGGCTGCCTGCCACCGTCCTGAATCGGGAAATCCGCGCTCAAGGGTATGGCGGCGGTCTCTCGTTATTGCGCGCCTTCCTCGCCACGCTCAAGCCCGCCCGCCGCGAAGCAGGTCCGGCCGTCCGTTTCGAGACCGAGCCCGGACGGCAGTTGCAGGCTGATTTCGTGGTCTTGCGCCGGGCCAGATCCCCCATGTCGGCCTTCGTCGCCACGCTGGGATACAGCCGCATGACGTTTGTCACCTTCGTACCGGACGAATCCTTCGAGTCCGTGCGGGACTCCCTGTTGCTGGCTTTTGACTATCTGGGCGGTGTGCCCCGCGAGGTGTTGTTCGACAACATGAAGACCGTGGTGCTGGAACGCGATGCCTACGGTGACGGCAAGCACCGTTTTCACCCCGGCTTGCTTCAACTGGCCGATGACCTGGGGTTCCGGATCCGGCTGTGTCGCCCGTATCGGGCCCAGACCAAAGGCAAGGTCGAGCGCTTCAATCGCTACTTCCGCGAGAGCTTCTACAACCCGTTGCTGACCCGGATGAAGGGCACGGGGCTGCTGCTCGATTGTGCTGCTGCCAACCGACGCGTCCGTGACTGGTTGGCAGACGAGGCGAATGTGCGGGTCCACGCCACCCTGAACGAGCGCCCCATCGACCGTTGGCGGCAGGAGCGGGAACACCTGCAACCCTTGCCATCCCGTGTGCGGCGCGACGAGGCCCCCCTGCTGGATAACAGTCTCCGCCCGGTACCACTGGAATCTCTCCAGCACCCACTGTCTGTCTATGACGCAATTGGGGAGGCCTGCCG
+>BC19A327A_unicycler.fasta.fasta|59_length=1339_depth=1.83x
+AAACGGAATCTATGGTCACTCCCGTTTTTGCAACACCGATTTTGACGACAAGTTGGCTTGCTTGAATCTATCCGGCGTCTGAATGGGATTTTATTCCCGCGCCTTGATGAGTTCCGCGCCTGATGAACCTCCAGAAAATATACGGCTTCAATGAGCCTTTCCGTTTTACAGGTTCCTCAACAGGCCGGTGGGCCGTTAGTATCATCAATATCAGTATTCGCAAAACCAGATCAGTAATTCTTTAAACCGGTGTATTTCTGCCGTTATGCTACATAAGTTTGCTGTCGTGCCGTTAGGGCCCAGGCTATTCTGGCCAGCTTGTTTGCCAGAGCACAAGTGACGACAAAGTTGCTTTTCCGGCACAGTAAATCCCTGACCCAATCGGCCAATTTGCCAGACTGGTGTTCCAGTTTTTGTATGAATACCCTGGCACATTGAACCAACAAAGTTCGGATCTTTTTATTACCTCGCTTACTAATTCCCAGCAATGTCGTCCTACCTCCCGTGCTGTACTGCCGAGGTACAAGCCCTGTTGCCGCCGCAAAGTCACGGCTGCTGGCGTACTGCTTCCCGTCGCCAATCTCAGTTGAAATAGTACTCGCTGTCAGTGTTCCGACGCAGGGAATGCTCAGCAAGCGCTGTCCAACCTCATCTTCGTCCAACTTTCGTTTCAACTGGGATTCCAAATCTTTAATCTGCTCAACAAGATAGTGATAATGCTGTTGTAATTTCAGCAATAACTGGCTGAGGTAAAGAGGCAAACTATTATCCTCAAGAATGGTACTCAGTCGGCTAATAACGGCAGCTCCTCGGGGAACGCTAATGCCAAATTCCAGCAGAAAAGCATGCATTTGATTGGTTGTTTTTACCTTATCCTGAACCAGGGATTCACGGACACGATGCAGAGCCCGCATTGCCTGCTGAGATTCCGTTCTGGGCTGCACAAAACGCATAGACGGACGCGATGCAGCTTCACAAATAGCTTCGGCGTCGACAAAGTCGTTTTTATTGCTTTTAACGAACGGGCGGACAAATTGTGGTGATATCAGCTTTGGGGAATGCCCCAACTCTTCCAACTTGCGTGCCATAAAGTGAGAACCGCCACAGGCTTCCATTGCGATGGTTGTAGCGGGGCATGTCGCCAAAAATTCGATCAACTTTGGCCGGGTAAATTTTTTACGGTAAACAGCCTTCCCGCGACGATCCTGGCAATGAATATGGAAAGAGTTTTTACCCAGATCGATACCAATGAGCGCAATGTTTTCCATGATAGTTCTCCGAATGAAAGCCTGTCCTCAGCATAGTACCGGGAAGGAGGGAGTGACCATCTCATTAAATA
diff -r 7a86e6e73d62 -r 41acae990b9b test-data/plasmids.msh
Binary file test-data/plasmids.msh has changed