# HG changeset patch
# User iuc
# Date 1651670143 0
# Node ID 6c829a430475a5dd8a3e011a3b1774873f5eb8f1
# Parent c47a0a93ffd2fe1c34e93428aba0ed76d58e8b4c
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_datasets commit a58a3198ea1b60b6aa9567c6c65f00f8361794f6"
diff -r c47a0a93ffd2 -r 6c829a430475 datasets_genome.xml
--- a/datasets_genome.xml Mon Mar 07 12:05:56 2022 +0000
+++ b/datasets_genome.xml Wed May 04 13:15:43 2022 +0000
@@ -19,10 +19,10 @@
$filters.reference
$filters.annotated
#if $filters.assembly_level:
---assembly_level $filters.assembly_level
+--assembly-level $filters.assembly_level
#end if
#if $filters.assembly_source:
---assembly_source $filters.assembly_source
+--assembly-source $filters.assembly_source
#end if
#if $filters.chromosomes:
--chromosomes '$filters.chromosomes'
@@ -68,7 +68,7 @@
-
+
@@ -90,23 +90,23 @@
- uncompressed and file_choices['exclude_seq']
+ uncompressed and not file_choices['exclude_seq']
- uncompressed and file_choices['exclude_genomic_cds']
+ uncompressed and not file_choices['exclude_genomic_cds']
- uncompressed and file_choices['exclude_gff3']
+ uncompressed and not file_choices['exclude_gff3']
- uncompressed and file_choices['exclude_rna']
+ uncompressed and not file_choices['exclude_rna']
- uncompressed and file_choices['exclude_protein']
+ uncompressed and not file_choices['exclude_protein']
@@ -125,6 +125,11 @@
+
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@@ -143,17 +169,16 @@
-
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@@ -172,8 +197,10 @@
-
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@@ -194,6 +217,25 @@
+
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diff -r c47a0a93ffd2 -r 6c829a430475 macros.xml
--- a/macros.xml Mon Mar 07 12:05:56 2022 +0000
+++ b/macros.xml Wed May 04 13:15:43 2022 +0000
@@ -1,5 +1,5 @@
- 13.4.0
+ 13.14.0
20.01
MIT
profile="@PROFILE@" license="@LICENSE@"
@@ -68,18 +68,15 @@
-
-
-
-
-
+
+
-
-
-
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+
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/GCF_000001405.40.seq.rpt.jsonl
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/GCF_000001405.40.seq.rpt.jsonl Wed May 04 13:15:43 2022 +0000
@@ -0,0 +1,191 @@
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","gcCount":"103674491","genbankAccession":"CM000663.2","length":248956422,"refseqAccession":"NC_000001.11","role":"assembled-molecule","sortOrder":1,"ucscStyleName":"chr1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270706.1","length":175055,"refseqAccession":"NT_187361.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270706v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270707.1","length":32032,"refseqAccession":"NT_187362.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270707v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270708.1","length":127682,"refseqAccession":"NT_187363.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270708v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270709.1","length":66860,"refseqAccession":"NT_187364.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270709v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270710.1","length":40176,"refseqAccession":"NT_187365.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270710v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270711.1","length":42210,"refseqAccession":"NT_187366.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270711v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270712.1","length":176043,"refseqAccession":"NT_187367.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270712v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270713.1","length":40745,"refseqAccession":"NT_187368.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270713v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"1","genbankAccession":"KI270714.1","length":41717,"refseqAccession":"NT_187369.1","role":"unlocalized-scaffold","sortOrder":1,"ucscStyleName":"chr1_KI270714v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"10","gcCount":"59342366","genbankAccession":"CM000672.2","length":133797422,"refseqAccession":"NC_000010.11","role":"assembled-molecule","sortOrder":10,"ucscStyleName":"chr10"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"11","gcCount":"70204082","genbankAccession":"CM000673.2","length":135086622,"refseqAccession":"NC_000011.10","role":"assembled-molecule","sortOrder":11,"ucscStyleName":"chr11"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"12","gcCount":"58038673","genbankAccession":"CM000674.2","length":133275309,"refseqAccession":"NC_000012.12","role":"assembled-molecule","sortOrder":12,"ucscStyleName":"chr12"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"13","gcCount":"38619357","genbankAccession":"CM000675.2","length":114364328,"refseqAccession":"NC_000013.11","role":"assembled-molecule","sortOrder":13,"ucscStyleName":"chr13"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","gcCount":"45815948","genbankAccession":"CM000676.2","length":107043718,"refseqAccession":"NC_000014.9","role":"assembled-molecule","sortOrder":14,"ucscStyleName":"chr14"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"GL000009.2","length":201709,"refseqAccession":"NT_113796.3","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_GL000009v2_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"GL000194.1","length":191469,"refseqAccession":"NT_113888.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_GL000194v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"GL000225.1","length":211173,"refseqAccession":"NT_167219.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_GL000225v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"KI270722.1","length":194050,"refseqAccession":"NT_187377.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_KI270722v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"KI270723.1","length":38115,"refseqAccession":"NT_187378.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_KI270723v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"KI270724.1","length":39555,"refseqAccession":"NT_187379.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_KI270724v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"KI270725.1","length":172810,"refseqAccession":"NT_187380.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_KI270725v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"14","genbankAccession":"KI270726.1","length":43739,"refseqAccession":"NT_187381.1","role":"unlocalized-scaffold","sortOrder":14,"ucscStyleName":"chr14_KI270726v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"15","gcCount":"46742416","genbankAccession":"CM000677.2","length":101991189,"refseqAccession":"NC_000015.10","role":"assembled-molecule","sortOrder":15,"ucscStyleName":"chr15"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"15","genbankAccession":"KI270727.1","length":448248,"refseqAccession":"NT_187382.1","role":"unlocalized-scaffold","sortOrder":15,"ucscStyleName":"chr15_KI270727v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"16","gcCount":"48251436","genbankAccession":"CM000678.2","length":90338345,"refseqAccession":"NC_000016.10","role":"assembled-molecule","sortOrder":16,"ucscStyleName":"chr16"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"16","genbankAccession":"KI270728.1","length":1872759,"refseqAccession":"NT_187383.1","role":"unlocalized-scaffold","sortOrder":16,"ucscStyleName":"chr16_KI270728v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"17","gcCount":"46714680","genbankAccession":"CM000679.2","length":83257441,"refseqAccession":"NC_000017.11","role":"assembled-molecule","sortOrder":17,"ucscStyleName":"chr17"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"17","genbankAccession":"GL000205.2","length":185591,"refseqAccession":"NT_113930.2","role":"unlocalized-scaffold","sortOrder":17,"ucscStyleName":"chr17_GL000205v2_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"17","genbankAccession":"KI270729.1","length":280839,"refseqAccession":"NT_187384.1","role":"unlocalized-scaffold","sortOrder":17,"ucscStyleName":"chr17_KI270729v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"17","genbankAccession":"KI270730.1","length":112551,"refseqAccession":"NT_187385.1","role":"unlocalized-scaffold","sortOrder":17,"ucscStyleName":"chr17_KI270730v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"18","gcCount":"40613699","genbankAccession":"CM000680.2","length":80373285,"refseqAccession":"NC_000018.10","role":"assembled-molecule","sortOrder":18,"ucscStyleName":"chr18"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"19","gcCount":"32693605","genbankAccession":"CM000681.2","length":58617616,"refseqAccession":"NC_000019.10","role":"assembled-molecule","sortOrder":19,"ucscStyleName":"chr19"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"2","gcCount":"101284083","genbankAccession":"CM000664.2","length":242193529,"refseqAccession":"NC_000002.12","role":"assembled-molecule","sortOrder":2,"ucscStyleName":"chr2"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"2","genbankAccession":"KI270715.1","length":161471,"refseqAccession":"NT_187370.1","role":"unlocalized-scaffold","sortOrder":2,"ucscStyleName":"chr2_KI270715v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"2","genbankAccession":"KI270716.1","length":153799,"refseqAccession":"NT_187371.1","role":"unlocalized-scaffold","sortOrder":2,"ucscStyleName":"chr2_KI270716v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"20","gcCount":"28406612","genbankAccession":"CM000682.2","length":64444167,"refseqAccession":"NC_000020.11","role":"assembled-molecule","sortOrder":20,"ucscStyleName":"chr20"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"21","gcCount":"18981353","genbankAccession":"CM000683.2","length":46709983,"refseqAccession":"NC_000021.9","role":"assembled-molecule","sortOrder":21,"ucscStyleName":"chr21"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","gcCount":"20315771","genbankAccession":"CM000684.2","length":50818468,"refseqAccession":"NC_000022.11","role":"assembled-molecule","sortOrder":22,"ucscStyleName":"chr22"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270731.1","length":150754,"refseqAccession":"NT_187386.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270731v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270732.1","length":41543,"refseqAccession":"NT_187387.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270732v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270733.1","length":179772,"refseqAccession":"NT_187388.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270733v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270735.1","length":42811,"refseqAccession":"NT_187390.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270735v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270736.1","length":181920,"refseqAccession":"NT_187391.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270736v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270737.1","length":103838,"refseqAccession":"NT_187392.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270737v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270738.1","length":99375,"refseqAccession":"NT_187393.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270738v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"22","genbankAccession":"KI270739.1","length":73985,"refseqAccession":"NT_187394.1","role":"unlocalized-scaffold","sortOrder":22,"ucscStyleName":"chr22_KI270739v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"3","gcCount":"91922884","genbankAccession":"CM000665.2","length":198295559,"refseqAccession":"NC_000003.12","role":"assembled-molecule","sortOrder":3,"ucscStyleName":"chr3"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"3","genbankAccession":"GL000221.1","length":155397,"refseqAccession":"NT_167215.1","role":"unlocalized-scaffold","sortOrder":3,"ucscStyleName":"chr3_GL000221v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"4","gcCount":"76972588","genbankAccession":"CM000666.2","length":190214555,"refseqAccession":"NC_000004.12","role":"assembled-molecule","sortOrder":4,"ucscStyleName":"chr4"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"4","genbankAccession":"GL000008.2","length":209709,"refseqAccession":"NT_113793.3","role":"unlocalized-scaffold","sortOrder":4,"ucscStyleName":"chr4_GL000008v2_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"5","gcCount":"93718374","genbankAccession":"CM000667.2","length":181538259,"refseqAccession":"NC_000005.10","role":"assembled-molecule","sortOrder":5,"ucscStyleName":"chr5"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"5","genbankAccession":"GL000208.1","length":92689,"refseqAccession":"NT_113948.1","role":"unlocalized-scaffold","sortOrder":5,"ucscStyleName":"chr5_GL000208v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"6","gcCount":"68907366","genbankAccession":"CM000668.2","length":170805979,"refseqAccession":"NC_000006.12","role":"assembled-molecule","sortOrder":6,"ucscStyleName":"chr6"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"7","gcCount":"70693857","genbankAccession":"CM000669.2","length":159345973,"refseqAccession":"NC_000007.14","role":"assembled-molecule","sortOrder":7,"ucscStyleName":"chr7"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"8","gcCount":"76166139","genbankAccession":"CM000670.2","length":145138636,"refseqAccession":"NC_000008.11","role":"assembled-molecule","sortOrder":8,"ucscStyleName":"chr8"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"9","gcCount":"52944769","genbankAccession":"CM000671.2","length":138394717,"refseqAccession":"NC_000009.12","role":"assembled-molecule","sortOrder":9,"ucscStyleName":"chr9"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"9","genbankAccession":"KI270717.1","length":40062,"refseqAccession":"NT_187372.1","role":"unlocalized-scaffold","sortOrder":9,"ucscStyleName":"chr9_KI270717v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"9","genbankAccession":"KI270718.1","length":38054,"refseqAccession":"NT_187373.1","role":"unlocalized-scaffold","sortOrder":9,"ucscStyleName":"chr9_KI270718v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"9","genbankAccession":"KI270719.1","length":176845,"refseqAccession":"NT_187374.1","role":"unlocalized-scaffold","sortOrder":9,"ucscStyleName":"chr9_KI270719v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"9","genbankAccession":"KI270720.1","length":39050,"refseqAccession":"NT_187375.1","role":"unlocalized-scaffold","sortOrder":9,"ucscStyleName":"chr9_KI270720v1_random"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000195.1","length":182896,"refseqAccession":"NT_113901.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000195v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000213.1","length":164239,"refseqAccession":"NT_167208.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000213v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000214.1","length":137718,"refseqAccession":"NT_167209.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000214v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000216.2","length":176608,"refseqAccession":"NT_167211.2","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000216v2"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000218.1","length":161147,"refseqAccession":"NT_113889.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000218v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000219.1","length":179198,"refseqAccession":"NT_167213.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000219v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000220.1","length":161802,"refseqAccession":"NT_167214.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000220v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000224.1","length":179693,"refseqAccession":"NT_167218.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000224v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"GL000226.1","length":15008,"refseqAccession":"NT_167220.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_GL000226v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270302.1","length":2274,"refseqAccession":"NT_187396.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270302v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270303.1","length":1942,"refseqAccession":"NT_187398.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270303v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270304.1","length":2165,"refseqAccession":"NT_187397.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270304v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270305.1","length":1472,"refseqAccession":"NT_187399.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270305v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270310.1","length":1201,"refseqAccession":"NT_187402.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270310v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270311.1","length":12399,"refseqAccession":"NT_187406.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270311v1"}
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+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270590.1","length":4685,"refseqAccession":"NT_187452.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270590v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270591.1","length":5796,"refseqAccession":"NT_187457.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270591v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270593.1","length":3041,"refseqAccession":"NT_187456.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270593v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270741.1","length":157432,"refseqAccession":"NT_187497.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270741v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270742.1","length":186739,"refseqAccession":"NT_187513.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270742v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270743.1","length":210658,"refseqAccession":"NT_187498.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270743v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270744.1","length":168472,"refseqAccession":"NT_187499.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270744v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270745.1","length":41891,"refseqAccession":"NT_187500.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270745v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270746.1","length":66486,"refseqAccession":"NT_187501.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270746v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270747.1","length":198735,"refseqAccession":"NT_187502.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270747v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270748.1","length":93321,"refseqAccession":"NT_187503.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270748v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270749.1","length":158759,"refseqAccession":"NT_187504.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270749v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270750.1","length":148850,"refseqAccession":"NT_187505.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270750v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270751.1","length":150742,"refseqAccession":"NT_187506.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270751v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270753.1","length":62944,"refseqAccession":"NT_187508.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270753v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270754.1","length":40191,"refseqAccession":"NT_187509.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270754v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270755.1","length":36723,"refseqAccession":"NT_187510.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270755v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270756.1","length":79590,"refseqAccession":"NT_187511.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270756v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Un","genbankAccession":"KI270757.1","length":71251,"refseqAccession":"NT_187512.1","role":"unplaced-scaffold","sortOrder":9999,"ucscStyleName":"chrUn_KI270757v1"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"X","gcCount":"67807309","genbankAccession":"CM000685.2","length":156040895,"refseqAccession":"NC_000023.11","role":"assembled-molecule","sortOrder":23,"ucscStyleName":"chrX"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Y","gcCount":"10963787","genbankAccession":"CM000686.2","length":57227415,"refseqAccession":"NC_000024.10","role":"assembled-molecule","sortOrder":24,"ucscStyleName":"chrY"}
+{"assemblyUnit":"GCF_000001305.16","assignedMoleculeLocationType":"Chromosome","chrName":"Y","genbankAccession":"KI270740.1","length":37240,"refseqAccession":"NT_187395.1","role":"unlocalized-scaffold","sortOrder":24,"ucscStyleName":"chrY_KI270740v1_random"}
+{"assemblyUnit":"GCF_000006015.1","assignedMoleculeLocationType":"Mitochondrion","chrName":"MT","gcCount":"7350","genbankAccession":"J01415.2","length":16569,"refseqAccession":"NC_012920.1","role":"assembled-molecule","sortOrder":1,"ucscStyleName":"chrM"}
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/GCF_000007445.1.genomic.gtf
--- a/test-data/GCF_000007445.1.genomic.gtf Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/GCF_000007445.1.genomic.gtf Wed May 04 13:15:43 2022 +0000
@@ -1,7 +1,3 @@
-#gtf-version 2.2
-#!genome-build ASM744v1
-#!genome-build-accession NCBI_Assembly:GCF_000007445.1
-#!annotation-date 05/06/2021 17:43:00
#!annotation-source NCBI RefSeq
NC_004431.1 RefSeq gene 190 255 . + . gene_id "C_RS00005"; transcript_id ""; gbkey "Gene"; gene "thrL"; gene_biotype "protein_coding"; locus_tag "C_RS00005"; old_locus_tag "c5491";
NC_004431.1 Protein Homology CDS 190 252 . + 0 gene_id "C_RS00005"; transcript_id "unassigned_transcript_1"; gbkey "CDS"; gene "thrL"; inference "COORDINATES: similar to AA sequence:RefSeq:NP_414542.1"; locus_tag "C_RS00005"; product "thr operon leader peptide"; protein_id "WP_001386572.1"; transl_table "11";
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.2.GCF_000007445.1.seq.rpt.jsonl
--- a/test-data/genome.2.GCF_000007445.1.seq.rpt.jsonl Mon Mar 07 12:05:56 2022 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-{"assemblyUnit":"GCF_000007455.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2640553","genbankAccession":"AE014075.1","length":5231428,"refseqAccession":"NC_004431.1","sortOrder":1}
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.2.GCF_000013305.1.genomic.gtf
--- a/test-data/genome.2.GCF_000013305.1.genomic.gtf Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/genome.2.GCF_000013305.1.genomic.gtf Wed May 04 13:15:43 2022 +0000
@@ -1,7 +1,3 @@
-#gtf-version 2.2
-#!genome-build ASM1330v1
-#!genome-build-accession NCBI_Assembly:GCF_000013305.1
-#!annotation-date 05/06/2021 17:31:48
#!annotation-source NCBI RefSeq
NC_008253.1 RefSeq gene 190 255 . + . gene_id "ECP_RS00005"; transcript_id ""; gbkey "Gene"; gene "thrL"; gene_biotype "protein_coding"; locus_tag "ECP_RS00005"; old_locus_tag "ECP_0001";
NC_008253.1 Protein Homology CDS 190 252 . + 0 gene_id "ECP_RS00005"; transcript_id "unassigned_transcript_1"; gbkey "CDS"; gene "thrL"; inference "COORDINATES: similar to AA sequence:RefSeq:NP_414542.1"; locus_tag "ECP_RS00005"; product "thr operon leader peptide"; protein_id "WP_001386572.1"; transl_table "11";
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.2.GCF_000013305.1.seq.rpt.jsonl
--- a/test-data/genome.2.GCF_000013305.1.seq.rpt.jsonl Mon Mar 07 12:05:56 2022 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-{"assemblyUnit":"GCF_000013315.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2495020","genbankAccession":"CP000247.1","length":4938920,"refseqAccession":"NC_008253.1","sortOrder":1}
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000007445.1.genomic.gbff
--- a/test-data/genome.3.GCF_000007445.1.genomic.gbff Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/genome.3.GCF_000007445.1.genomic.gbff Wed May 04 13:15:43 2022 +0000
@@ -1,4 +1,3 @@
-LOCUS NC_004431 5231428 bp DNA circular CON 13-MAY-2021
DEFINITION Escherichia coli CFT073, complete sequence.
ACCESSION NC_004431 NZ_AE016755 NZ_AE016756 NZ_AE016757 NZ_AE016758
NZ_AE016759 NZ_AE016760 NZ_AE016761 NZ_AE016762 NZ_AE016763
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000007445.1.genomic.gff
--- a/test-data/genome.3.GCF_000007445.1.genomic.gff Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/genome.3.GCF_000007445.1.genomic.gff Wed May 04 13:15:43 2022 +0000
@@ -1,10 +1,2 @@
-##gff-version 3
-#!gff-spec-version 1.21
-#!processor NCBI annotwriter
-#!genome-build ASM744v1
-#!genome-build-accession NCBI_Assembly:GCF_000007445.1
-#!annotation-date 05/06/2021 17:43:00
-#!annotation-source NCBI RefSeq
-##sequence-region NC_004431.1 1 5231428
##species https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=199310
NC_004431.1 RefSeq region 1 5231428 . + . ID=NC_004431.1:1..5231428;Dbxref=taxon:199310;Is_circular=true;Name=ANONYMOUS;gbkey=Src;genome=chromosome;mol_type=genomic DNA;strain=CFT073
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000007445.1.seq.rpt.jsonl
--- a/test-data/genome.3.GCF_000007445.1.seq.rpt.jsonl Mon Mar 07 12:05:56 2022 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-{"assemblyUnit":"GCF_000007455.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2640553","genbankAccession":"AE014075.1","length":5231428,"refseqAccession":"NC_004431.1","sortOrder":1}
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000013305.1.genomic.gbff
--- a/test-data/genome.3.GCF_000013305.1.genomic.gbff Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/genome.3.GCF_000013305.1.genomic.gbff Wed May 04 13:15:43 2022 +0000
@@ -1,4 +1,3 @@
-LOCUS NC_008253 4938920 bp DNA circular CON 13-MAY-2021
DEFINITION Escherichia coli 536, complete sequence.
ACCESSION NC_008253
VERSION NC_008253.1
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000013305.1.genomic.gff
--- a/test-data/genome.3.GCF_000013305.1.genomic.gff Mon Mar 07 12:05:56 2022 +0000
+++ b/test-data/genome.3.GCF_000013305.1.genomic.gff Wed May 04 13:15:43 2022 +0000
@@ -1,10 +1,2 @@
-##gff-version 3
-#!gff-spec-version 1.21
-#!processor NCBI annotwriter
-#!genome-build ASM1330v1
-#!genome-build-accession NCBI_Assembly:GCF_000013305.1
-#!annotation-date 05/06/2021 17:31:48
-#!annotation-source NCBI RefSeq
-##sequence-region NC_008253.1 1 4938920
##species https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=362663
NC_008253.1 RefSeq region 1 4938920 . + . ID=NC_008253.1:1..4938920;Dbxref=taxon:362663;Is_circular=true;Name=ANONYMOUS;gbkey=Src;genome=chromosome;mol_type=genomic DNA;serogroup=O6:K15:H31;strain=536
diff -r c47a0a93ffd2 -r 6c829a430475 test-data/genome.3.GCF_000013305.1.seq.rpt.jsonl
--- a/test-data/genome.3.GCF_000013305.1.seq.rpt.jsonl Mon Mar 07 12:05:56 2022 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,1 +0,0 @@
-{"assemblyUnit":"GCF_000013315.1","assignedMoleculeLocationType":"Chromosome","chrName":"ANONYMOUS","gcCount":"2495020","genbankAccession":"CP000247.1","length":4938920,"refseqAccession":"NC_008253.1","sortOrder":1}