mirror of
https://github.com/MillironX/nf-core_modules.git
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682f789f93
* Bump tool versions for modules required in viralrecon * Fix all the tests * Fix Prettier lint * Remove empty md5sums
260 lines
16 KiB
YAML
260 lines
16 KiB
YAML
- name: artic minion
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command: nextflow run ./tests/modules/artic/minion -entry test_artic_minion -c ./tests/config/nextflow.config -c ./tests/modules/artic/minion/nextflow.config
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tags:
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- artic
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- artic/minion
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files:
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- path: output/artic/test.1.vcf
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md5sum: f0278719cbb853addcad74b73d810a24
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- path: output/artic/test.2.vcf
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md5sum: f0278719cbb853addcad74b73d810a24
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- path: output/artic/test.alignreport.er
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md5sum: ddfff35c7ebc9837530c78f7a213cea0
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- path: output/artic/test.alignreport.txt
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md5sum: 0fcadf1467ac253476b2d43bbfa36616
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- path: output/artic/test.consensus.fasta
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md5sum: 60ace9fea33aca4c13f3502e330bff85
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- path: output/artic/test.coverage_mask.txt
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md5sum: 7abd414756c444c86766123a60687ed1
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- path: output/artic/test.coverage_mask.txt.1.depths
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md5sum: d4170a48491e12f34b0a15a336bdf5e6
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- path: output/artic/test.coverage_mask.txt.2.depths
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md5sum: 130f85d80c22fccc3e0bbd9de12d310d
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- path: output/artic/test.fail.vcf
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md5sum: e6e184f1fa153868e3acea0eab42e484
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- path: output/artic/test.fastq.gz.index
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md5sum: eaa2b34db5a53fb2d410c5b3bf857fd9
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- path: output/artic/test.fastq.gz.index.fai
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md5sum: 81d718eeaaaae68cb33003f56194e956
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- path: output/artic/test.fastq.gz.index.gzi
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md5sum: 7dea362b3fac8e00956a4952a3d4f474
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- path: output/artic/test.fastq.gz.index.readdb
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md5sum: 3c6296842e91578db93688b4021c8947
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- path: output/artic/test.merged.vcf
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md5sum: e6e184f1fa153868e3acea0eab42e484
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- path: output/artic/test.minion.log.txt
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contains:
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- "artic_vcf_merge"
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- path: output/artic/test.muscle.in.fasta
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md5sum: 40ae4c89de797d1548c642f0da7a86cc
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- path: output/artic/test.muscle.out.fasta
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md5sum: 40ae4c89de797d1548c642f0da7a86cc
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- path: output/artic/test.pass.vcf.gz
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md5sum: baeafcfc2f738cce771ba895d66e9e01
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- path: output/artic/test.pass.vcf.gz.tbi
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md5sum: 4cb176febbc8c26d717a6c6e67b9c905
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- path: output/artic/test.preconsensus.fasta
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md5sum: 12b16397bae7c68d38150571a6ac6185
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- path: output/artic/test.primers.vcf
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md5sum: e6e184f1fa153868e3acea0eab42e484
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- path: output/artic/test.primersitereport.txt
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- path: output/artic/test.primertrimmed.rg.sorted.bam
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- path: output/artic/test.primertrimmed.rg.sorted.bam.bai
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md5sum: 0d76977b2e36046cc176112776c5fa4e
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- path: output/artic/test.sorted.bam
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md5sum: 292611ae9885df12575b80853cb5508b
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- path: output/artic/test.sorted.bam.bai
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md5sum: 0d76977b2e36046cc176112776c5fa4e
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- path: output/artic/test.trimmed.rg.sorted.bam
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- path: output/artic/test.trimmed.rg.sorted.bam.bai
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md5sum: 0d76977b2e36046cc176112776c5fa4e
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- path: output/untar/fast5/100read_fast5/00068f7a-51b3-4933-8fc6-7d6e29181ff9.fast5
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md5sum: b7aeb3cc877d858f97144d45551264bc
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- path: output/untar/fast5/100read_fast5/001ed67f-906f-4f37-9770-85d40f5ffee6.fast5
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md5sum: add9b8658095173f7cef6fc23236d913
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- path: output/untar/fast5/100read_fast5/0043238c-3a78-48f1-a8ec-d492280da6e4.fast5
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md5sum: 11d83db48d3b284017b919d476e44294
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- path: output/untar/fast5/100read_fast5/004a65aa-6700-4ad7-9550-dc59f8708908.fast5
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md5sum: fb9f124a05af59ea3ede371cd48e404c
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- path: output/untar/fast5/100read_fast5/00c6481f-9022-4173-9b74-f375c34b9a9b.fast5
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md5sum: c186053a4fee2d509e1d108be8e131e1
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- path: output/untar/fast5/100read_fast5/00da3999-12fd-449d-bd07-32a879667a3d.fast5
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md5sum: ec051e5ce357d632ff740a88087a08fd
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- path: output/untar/fast5/100read_fast5/018c4b52-48fa-4cc8-a7b4-500f41420279.fast5
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md5sum: 9d5bae9c9df0105b3b329777977d6f34
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- path: output/untar/fast5/100read_fast5/01faaaa1-eca2-4bcd-8666-b4d69497107e.fast5
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md5sum: 5855c80a192a242f03a93b74f12dfa46
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- path: output/untar/fast5/100read_fast5/02085a68-dc6e-4275-bd1e-f112fed3bd83.fast5
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md5sum: 6b30e06080aab94b6fa8f476e537f3d2
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- path: output/untar/fast5/100read_fast5/022647b9-0e16-4318-a794-c5749705b67d.fast5
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md5sum: 6606f2661a5463772f4ee30a3dba520e
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- path: output/untar/fast5/100read_fast5/022fc908-aa6e-4d29-a5ad-6a30a9da7e3b.fast5
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md5sum: 53d611cf6465ef914392c11b88339ba0
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- path: output/untar/fast5/100read_fast5/02445dc2-39ee-49f1-8a42-51ebfea52c33.fast5
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md5sum: f7c5844165cbc0566ce1569184fc4213
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- path: output/untar/fast5/100read_fast5/031ff99b-b11f-40dc-9258-273ec97683f8.fast5
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md5sum: e78faae6230537a20497d3114cffcafd
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- path: output/untar/fast5/100read_fast5/03e0e732-cb7a-4084-8fc9-303180c83786.fast5
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md5sum: 27c8ce19a0955d045053a6925e249ae4
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- path: output/untar/fast5/100read_fast5/0457184e-6e09-4883-baf3-824d11101c43.fast5
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md5sum: 7a89c45ae6b360bc585c8b14196ab3f7
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- path: output/untar/fast5/100read_fast5/045f1e6a-9b5d-4840-bad9-c4b738b61267.fast5
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md5sum: ee0c3e5fa1f6820968482594f45e8948
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- path: output/untar/fast5/100read_fast5/046258fa-b951-43a1-bbed-66cdbeac8e71.fast5
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md5sum: 262d3ee396bab6014505b25ba88cea90
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- path: output/untar/fast5/100read_fast5/048d5d3a-16ed-4f36-aeb9-3311dd9dc593.fast5
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md5sum: deea9c03b10aa287f873779baea2a649
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- path: output/untar/fast5/100read_fast5/04a0ee1e-0406-4394-87ba-a67344318a5d.fast5
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md5sum: 7f43a0e0de0053a63a28e36374ec20b4
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- path: output/untar/fast5/100read_fast5/04c07133-cd56-48b9-9f16-86e12cacaf92.fast5
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md5sum: d607992919072ddb025d766d8ba1a465
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- path: output/untar/fast5/100read_fast5/052036a3-6af0-4650-9f96-e97e34c52bbc.fast5
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md5sum: 22ccc03bee288edfc589d5f4b11cb70d
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- path: output/untar/fast5/100read_fast5/0562aebd-b55b-4752-83eb-12323938c242.fast5
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md5sum: 1668668f2d0658a6e3417b08ea093c43
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- path: output/untar/fast5/100read_fast5/0565fd27-4849-4d14-83ff-2864dc3e109e.fast5
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md5sum: 649ff949e10052b877d9ddb7d6a19009
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- path: output/untar/fast5/100read_fast5/05f48799-d4ca-4f54-90e2-de208c0c1711.fast5
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md5sum: 5bddb9c020ddd233adc399c806186af6
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- path: output/untar/fast5/100read_fast5/064b4a28-a036-46cb-b466-62b8486de288.fast5
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md5sum: 4f0d1d5400caa14c376c5c2ba5cf4e90
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- path: output/untar/fast5/100read_fast5/064ef037-67eb-49a4-9a72-e2b2e34cfe5c.fast5
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md5sum: e8420b20501c06a31223204611aacd44
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- path: output/untar/fast5/100read_fast5/066c72de-139a-4514-aef9-36cc3927a2c6.fast5
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md5sum: f703f4942aaa470e2d00706687cea430
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- path: output/untar/fast5/100read_fast5/069ce6e7-41b9-41b2-a6d8-8d39c16dbaa2.fast5
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md5sum: 4ef4d47bf346c9cca805e991a6f5400b
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- path: output/untar/fast5/100read_fast5/06f0339b-75b5-4926-b1a7-878818b5fe67.fast5
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md5sum: 163a97396e5cf91c40fab7432f52d101
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- path: output/untar/fast5/100read_fast5/074ebef4-edbd-4d2a-af6c-46512693a990.fast5
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md5sum: da9798ae314dca12f69ef45c10c8a5a7
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- path: output/untar/fast5/100read_fast5/08239d1b-1710-4187-b96e-da861a0e4624.fast5
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md5sum: 8ff2a720e61c52a29e2863d68f84c917
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- path: output/untar/fast5/100read_fast5/084af0ac-0334-4840-a3a5-3ff62464ae71.fast5
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md5sum: 3c2f27f6c21eefa53eafaa70252f9f49
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- path: output/untar/fast5/100read_fast5/08db75dc-49a9-459d-afc8-5ed1d8e47901.fast5
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md5sum: 6f25bb694f859d53b9dfd4047610d97f
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- path: output/untar/fast5/100read_fast5/091fba78-028e-4ed2-a799-35e9ba64541c.fast5
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md5sum: 58da6a195dad9cb15fb5ebb76f9ecd19
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- path: output/untar/fast5/100read_fast5/094a4c34-c97b-4b83-bd02-1f69e6ccadc0.fast5
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md5sum: adfb65496a10bae743e3f0e144220b43
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- path: output/untar/fast5/100read_fast5/09b7f97c-fb32-4a4a-84d9-c45dfc2b46d0.fast5
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md5sum: fcce7b510edcf012eae95662370d663c
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- path: output/untar/fast5/100read_fast5/0a30e10c-26b5-4c23-a7ee-493e7b3ebffb.fast5
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md5sum: fd730b0b9e01a9ce3a0a4f7b39ee838e
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- path: output/untar/fast5/100read_fast5/0a86654b-30ec-4271-9882-b490de473b5e.fast5
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md5sum: 9114d618e2713681e7db42932d4b5e92
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- path: output/untar/fast5/100read_fast5/0a92fbf4-99b4-40cd-98e7-93cfbddeb35e.fast5
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md5sum: 516a3d935f9cef2abf4eb0a781ba8d19
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- path: output/untar/fast5/100read_fast5/0af92aee-911c-4402-ba14-ecaabdb73548.fast5
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md5sum: ccbcd71ecb9a46bd2b657f2e2c11354a
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- path: output/untar/fast5/100read_fast5/0b168ee0-74c4-494d-a593-a4b4b538a9cb.fast5
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md5sum: 9f8abf45b60ac800d4195e79bad26ea1
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- path: output/untar/fast5/100read_fast5/0b8b3929-730d-42a6-84e0-5689b7439c71.fast5
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md5sum: 1d03a26a58ec0668a1c54cc38fb65c3a
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- path: output/untar/fast5/100read_fast5/0bb9f17c-3b8f-486d-ac03-6550199a0a49.fast5
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md5sum: b713ea7f1cd45b5f5041a3a97e87106d
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- path: output/untar/fast5/100read_fast5/0c5e39bf-e1c5-4208-b110-9a00b55132e4.fast5
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md5sum: 31e32600bbf9b3523233260868468b00
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- path: output/untar/fast5/100read_fast5/0cc2613c-9ade-4ec9-96c7-07ab2820bbd7.fast5
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md5sum: f84eb9bf15a0af603b9f656fb469f305
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- path: output/untar/fast5/100read_fast5/0cc85c6c-ed86-422e-a093-d2b81089cc6b.fast5
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md5sum: 536ad1a1c1f8e5c17d8183c7950034a0
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- path: output/untar/fast5/100read_fast5/0d448640-aa67-4e58-9ce8-004ca23b0412.fast5
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md5sum: c97a3ae4fcb9123ea4ca89e8a6e391af
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- path: output/untar/fast5/100read_fast5/0dad8e5f-77e3-4fd1-b569-b06f5b87d8c3.fast5
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md5sum: 1225db8f9879447708aa85f8a096aafb
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- path: output/untar/fast5/100read_fast5/0dd4696c-a7dd-4e3a-9ce5-37a258b45373.fast5
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md5sum: 361426f4430ad8edadae17ab4ddfd7cf
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- path: output/untar/fast5/100read_fast5/0e5018bc-45fc-40d4-8806-e22e07a915d0.fast5
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md5sum: f21cba587246cf4c9e0db4f4914db634
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- path: output/untar/fast5/100read_fast5/0e51c070-d577-4293-8389-bd34fdda9eac.fast5
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md5sum: e426287a64d0fe356878673c7990e457
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- path: output/untar/fast5/100read_fast5/0e5ff4de-814b-4ee2-bf8f-3291b8bbdaae.fast5
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md5sum: a2429274097a3762eb8fd9290208e35d
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- path: output/untar/fast5/100read_fast5/0f06cd06-1136-4b10-b248-cd4324f6de22.fast5
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md5sum: 4ddea20115ae9875bff711cb0f2cbcd3
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- path: output/untar/fast5/100read_fast5/0f3ca011-bb96-4fe2-92e2-31b0bac90d97.fast5
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md5sum: df29e75d7a273d3b6a75e807a814993a
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- path: output/untar/fast5/100read_fast5/0f7db51f-ff49-45ea-b58a-9fb58daf249d.fast5
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md5sum: 671423af2189b08850eaab29b42566ca
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- path: output/untar/fast5/100read_fast5/0fd3ec80-6fb4-4378-bdb6-df4f84951049.fast5
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md5sum: 7376ee3f340c041afda6bbd2c3df353f
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- path: output/untar/fast5/100read_fast5/10361e9b-159a-447d-8cf0-1976515f00f4.fast5
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md5sum: f73c994cb9b6ec891ea936c54aa2f7a2
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- path: output/untar/fast5/100read_fast5/10508138-2f5e-4405-99f4-46af4452893c.fast5
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md5sum: c6a0b38fcd5a4be72793b43149ba04be
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- path: output/untar/fast5/100read_fast5/10ac42d4-2818-48f6-9d67-1c3019fde890.fast5
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md5sum: 5e5ae354e0aa8f985f5e5e8bd811eb73
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- path: output/untar/fast5/100read_fast5/10f98781-e47e-43c3-9006-6d73963ee710.fast5
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md5sum: 93f6e790fc41c1e266b1c4b18f2ab0ee
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- path: output/untar/fast5/100read_fast5/1147d9c6-c190-47e6-8007-2e0f18d88f2b.fast5
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md5sum: 15fbf533ac4a98124cb043abef23d0ba
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- path: output/untar/fast5/100read_fast5/11e4024c-1997-4372-b1d7-4c884cf58047.fast5
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md5sum: 788bb232b0b3b059a7f39a72c1f8d1e5
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- path: output/untar/fast5/100read_fast5/11e944d1-a2c9-409c-ac72-9c1563443df7.fast5
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md5sum: 31975cf5048b6af550f14b1e217a8f5d
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- path: output/untar/fast5/100read_fast5/123114b2-247c-4abc-be0c-3a94f02043a2.fast5
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md5sum: 633689761b59db120dcc5d560587416c
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- path: output/untar/fast5/100read_fast5/1294c94b-1dac-4c4c-9c36-e8e8996e7f09.fast5
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md5sum: 161fc1cb25ce05775f81e778f5bb8e93
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- path: output/untar/fast5/100read_fast5/12ac7997-50bc-4183-95c4-e953ad4eaad1.fast5
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md5sum: 4a3a4966ede5f0251a65c93c99a66eeb
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- path: output/untar/fast5/100read_fast5/13265c3e-bbb3-4ebe-b4db-9fbb4bdaff01.fast5
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md5sum: ad799b6a66cb2d8c08acbf232c23bf49
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- path: output/untar/fast5/100read_fast5/1377f442-7e38-4c3f-aacb-e8049ad884fe.fast5
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md5sum: f202ebf7b46bf289b9b1d9e82d8e96db
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- path: output/untar/fast5/100read_fast5/137cae6b-0009-4ee2-8a0e-7a2e88179c16.fast5
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md5sum: 6afbc7da1554e1d5328f6e47cc086772
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- path: output/untar/fast5/100read_fast5/139c8fcc-8dcb-4cf7-aa52-632718587fe7.fast5
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md5sum: 6aade40bab37e9a4fe008d21732c6790
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- path: output/untar/fast5/100read_fast5/13bc3b77-a88e-44b9-b119-cd56aa972f61.fast5
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md5sum: 1d668e59bc724ce47d17f2a4850a9b43
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- path: output/untar/fast5/100read_fast5/13dbd26f-978f-49ad-9ae6-ca909083b6ce.fast5
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md5sum: 2106344b03e8b834c20fef4406cf2aa6
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- path: output/untar/fast5/100read_fast5/151bd13c-c12f-41a6-be02-e97e70a57814.fast5
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md5sum: 8718a5b883496cde586dbbb256f13bb2
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- path: output/untar/fast5/100read_fast5/16325928-3440-4a49-94c5-a93b4f6da961.fast5
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md5sum: da871b8be0d502e05ba6b105f9bd4673
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- path: output/untar/fast5/100read_fast5/16d9892d-bead-4a6f-b6c5-736c6f602fc1.fast5
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md5sum: b7844e2a38c120fad74dec350dfd8adf
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- path: output/untar/fast5/100read_fast5/1721053e-98f4-47a1-ab93-f75bc1c03c79.fast5
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md5sum: 839e7a9335d54c6dd185a1a9486d9b9e
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- path: output/untar/fast5/100read_fast5/1730fabf-f1ac-4a02-aa2e-21dcd14fed00.fast5
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md5sum: ee53b732d0c4dd87dd8742cf4346b311
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- path: output/untar/fast5/100read_fast5/1783d96c-3955-4405-b765-472c6286be46.fast5
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md5sum: 6bcbda04b219c8bf971253cc2423a527
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- path: output/untar/fast5/100read_fast5/180da5c9-4574-48ab-8e6a-8f8a73767e30.fast5
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md5sum: 8ef4d3255d87a6fb0fa24b621b72e75a
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- path: output/untar/fast5/100read_fast5/1870a88c-439f-4125-a06c-38b1bf4416e4.fast5
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md5sum: 62db261bbc152a16b0d910680202ba8a
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- path: output/untar/fast5/100read_fast5/188b5eae-fce2-439c-b490-aff6c4327499.fast5
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md5sum: c3157f03f56d03820726ff8ff981b8c9
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- path: output/untar/fast5/100read_fast5/18cef30b-9fe5-40b4-9094-0389bb5aeb8e.fast5
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md5sum: 9fc63db9ca59ac6ff6fa15cfe55b3106
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- path: output/untar/fast5/100read_fast5/18ee103f-1cf8-4694-b2e7-ac228fe70ccd.fast5
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md5sum: 24dc02b54e6712c583f5977bce1d3cd3
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- path: output/untar/fast5/100read_fast5/190a9ebe-4d5f-43c0-a495-82ff58944d07.fast5
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md5sum: 489aa874a1c7c0603076f7ef359d6ace
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- path: output/untar/fast5/100read_fast5/190c4417-c4cf-40fe-a0df-db4b495a3f77.fast5
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md5sum: 997a74664ddab756907435890465d554
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- path: output/untar/fast5/100read_fast5/1a0c9927-e355-49c3-877a-e6b95bc1a402.fast5
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md5sum: fdc9f5f461d0e30ad29cf84e03b6c18d
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- path: output/untar/fast5/100read_fast5/1a276f1c-5a5b-4ed2-b071-87f59f7c5233.fast5
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md5sum: 6269d04009267b7e0df724d7ce355346
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- path: output/untar/fast5/100read_fast5/1a5c9192-aded-4e94-8dcb-9c04a402978e.fast5
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md5sum: 78ce5c5d770d7905bc1986203d69ed49
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- path: output/untar/fast5/100read_fast5/1af84d7e-8fc6-4dba-8750-a0d701f36d1d.fast5
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md5sum: ed5970f92ecdcce95f84dbb1bd275b8e
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- path: output/untar/fast5/100read_fast5/1b753736-87b1-4753-ab1d-bfd7e2d94e9e.fast5
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md5sum: 6b5a2fd8b445d4e43eef6d8597932d88
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- path: output/untar/fast5/100read_fast5/1b760e8d-7b17-47e0-ba96-5755fc4ddd63.fast5
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md5sum: 43eb9e8276e9d0870a4c74882d42e5a0
|
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- path: output/untar/fast5/100read_fast5/1b86544f-8075-46a2-91f4-baac36216ac2.fast5
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md5sum: d6266147405391c00aa4dc0ad6797532
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- path: output/untar/fast5/100read_fast5/1bd0dad7-1600-44a2-90b8-d5cd7b7caa6d.fast5
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md5sum: 863226172b856834a779eb2013c3a765
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- path: output/untar/fast5/100read_fast5/1d568051-bdd6-4204-ac34-97b5a3f7375c.fast5
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md5sum: 7d4cdf29110898e5f6a3288a0a2b9342
|
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- path: output/untar/fast5/100read_fast5/1d650a9e-4e67-456a-9abe-bd34b238abe4.fast5
|
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md5sum: 3fac1d13ed49703e33e92b8aaab3dac6
|
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- path: output/untar/fast5/100read_fast5/1d86c2b3-c2c6-43a1-97ed-8c1f0cbf6476.fast5
|
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md5sum: 2eed32c760d94aac2dce49c2364f6cd9
|
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- path: output/untar/fast5/100read_fast5/20586d1a-2cd0-45aa-abc2-04ac66d8ea46.fast5
|
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md5sum: d89ef1d32a52fc5d45a17d7682e4de22
|
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- path: output/untar/fast5/100read_fast5/206626c5-ccf2-4927-9987-164f627bdede.fast5
|
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md5sum: 045d9fdb48f0b58456c7012b735c8101
|
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- path: output/untar/fast5/100read_fast5/2109d790-67ec-4fd1-8931-6c7e61908ff3.fast5
|
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md5sum: 623d2e3213f0423e33b7993d803e4ae5
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- path: output/untar/fast5/100read_fast5/2166cca5-c0ab-49eb-aec1-fec09bdfbd83.fast5
|
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md5sum: 54ac4ec12232104381d2dcd619c9b4be
|