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‎tests/test_hiv.nf.test.snap‎

Lines changed: 60 additions & 46 deletions
Original file line numberDiff line numberDiff line change
@@ -25,6 +25,9 @@
2525
"CAT_FASTQ": {
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"cat": 9.5
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},
28+
"CONSENSUS_LIFTOFF": {
29+
"liftoff": "v1.6.3"
30+
},
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"CUSTOM_GETCHROMSIZES": {
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"getchromsizes": "1.22.1"
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},
@@ -342,11 +345,15 @@
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"variants/ivar/consensus/ivar/SRR6937100.consensus.qual.txt",
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"variants/ivar/consensus/ivar/base_qc",
344347
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.ACTG_density.pdf",
348+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.B_density.pdf",
349+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.H_density.pdf",
350+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.K_density.pdf",
345351
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.M_density.pdf",
346352
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.N_density.pdf",
347353
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.N_run.tsv",
348354
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.R_density.pdf",
349355
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.S_density.pdf",
356+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.V_density.pdf",
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"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.W_density.pdf",
351358
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.Y_density.pdf",
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"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.base_counts.pdf",
@@ -545,7 +552,7 @@
545552
"multiqc_ivar_variants.yaml:md5,c0eb1e73e4ec11c252b2476108d4a560",
546553
"multiqc_kraken.yaml:md5,bbacecf8e782bb601be23351c164dd6b",
547554
"multiqc_nextclade_clade.yaml:md5,9acf3d4a4b35cf58df39ffbcef25f9e8",
548-
"multiqc_quast_quast_variants.yaml:md5,3ea1b6bf9d585768346698daa2339f8a",
555+
"multiqc_quast_quast_variants.yaml:md5,1ae4462a9f07a70f5f03fa4dc5d001b8",
549556
"multiqc_snpeff.yaml:md5,9e82cc6cac68db071ae2b0640c94f322",
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"snpeff_effects.yaml:md5,0503d006001515b4ed66d4546cd0d198",
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"snpeff_variant_effects_class.yaml:md5,af26a9b0e18603e6a23bc0158c7c7769",
@@ -588,33 +595,33 @@
588595
"DRR030302.bcftools_stats.txt:md5,3d4dddf4d9a13856b3c0e273e5b7e218",
589596
"SRR4071760.bcftools_stats.txt:md5,09aee0ae7dc39230a7365b6050f4c2ed",
590597
"SRR6937100.bcftools_stats.txt:md5,a76b0a4bc08627ac907c13a581cd50d4",
591-
"DRR030302.consensus.fa:md5,f706c99c53bfcd1eb65ba77b1cd12643",
592-
"SRR4071760.consensus.fa:md5,8b9363bf424883f1cf04f5bb8b58229c",
593-
"SRR6937100.consensus.fa:md5,d5ac0f9f6d8b89c870c93bbf1661f67e",
594-
"DRR030302.consensus.N_run.tsv:md5,7d724bf9fb2801ceef8103b115827f05",
595-
"DRR030302.consensus.base_counts.tsv:md5,206512baa45f665159ede9b254ac99a5",
598+
"DRR030302.consensus.fa:md5,9f628ab2c1f2347aa8a176429d10c112",
599+
"SRR4071760.consensus.fa:md5,776a2d42ce259e818397a47eae1a66b3",
600+
"SRR6937100.consensus.fa:md5,62daddd34a35e441deac3be654fd47c8",
601+
"DRR030302.consensus.N_run.tsv:md5,8b04a52d7c23e129fb38d9ef125eabeb",
602+
"DRR030302.consensus.base_counts.tsv:md5,f9acbf56202cb2616d950ebbf36d1ef2",
596603
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597-
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604+
"SRR4071760.consensus.base_counts.tsv:md5,a340da5aa0085bc07c5eec663d342dec",
598605
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600607
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601608
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603-
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604-
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605-
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606-
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607-
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608-
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609-
"SRR6937100_mutation_table.csv:md5,fed0734d8addefbc6919514c42c55570",
610-
"SRR6937100_mutation_table_short.csv:md5,b3a5e4e4a4b50cc49b3acc598a4b08d9",
611-
"SRR6937100_resistance_table.csv:md5,a106b7b40928786e40cb79dde3fdaf3e",
612-
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613-
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614-
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615-
"DRR030302.csv:md5,d07a7b172bf7a73b5f7554aaad9ae4d9",
616-
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617-
"SRR6937100.csv:md5,1410a81434adecea2149273696ba2103",
610+
"DRR030302_mutation_table.csv:md5,3fc74befb1dfff274a6b823f6c0e1335",
611+
"DRR030302_mutation_table_short.csv:md5,c05dc3d86b84a5d9911792bec2bde72e",
612+
"DRR030302_resistance_table.csv:md5,c5e435805207f3ccf86cd98e4e0e235c",
613+
"SRR4071760_mutation_table.csv:md5,d4ce4229a826950c134d465bb78e6c91",
614+
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615+
"SRR4071760_resistance_table.csv:md5,402f4bdb6933c6cc2243b771b2587867",
616+
"SRR6937100_mutation_table.csv:md5,8b46e5a2002d30e0974d92846822fa5f",
617+
"SRR6937100_mutation_table_short.csv:md5,a6a131d1e442512722462b322d2be1f3",
618+
"SRR6937100_resistance_table.csv:md5,695009d53d79f0648ef62524b97f0538",
619+
"DRR030302_resistance.json:md5,1fdfd03ee587a38a356942c3ec82d08d",
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"SRR4071760_resistance.json:md5,00d5130c19aa7d8909df48383eff6b9f",
621+
"SRR6937100_resistance.json:md5,51689a45b50c07ddb1b54dedf8ce7043",
622+
"DRR030302.csv:md5,1a9b758b80aac691d1890e4f51ffd580",
623+
"SRR4071760.csv:md5,6d2a42c9d871306c2d8789fbb9613f32",
624+
"SRR6937100.csv:md5,8dccbab1381f382bd23bd7a9bf1c6072",
618625
"gc.icarus.txt:md5,19276775d96d211b053f1a3976d6a669",
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"SRR4071760.variant_counts.log:md5,66a253121f15c8920921671c869d8714",
@@ -638,7 +645,7 @@
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"nf-test": "0.9.3",
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"nextflow": "25.04.8"
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},
641-
"timestamp": "2025-11-14T10:14:13.591558291"
648+
"timestamp": "2025-11-25T16:36:14.442643606"
642649
},
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"-profile test_hiv": {
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"content": [
@@ -666,6 +673,9 @@
666673
"CAT_FASTQ": {
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"cat": 9.5
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},
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"CONSENSUS_LIFTOFF": {
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"liftoff": "v1.6.3"
678+
},
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"CUSTOM_GETCHROMSIZES": {
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"getchromsizes": "1.22.1"
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},
@@ -977,11 +987,15 @@
977987
"variants/ivar/consensus/ivar/SRR6937100.consensus.qual.txt",
978988
"variants/ivar/consensus/ivar/base_qc",
979989
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.ACTG_density.pdf",
990+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.B_density.pdf",
991+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.H_density.pdf",
992+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.K_density.pdf",
980993
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.M_density.pdf",
981994
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.N_density.pdf",
982995
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.N_run.tsv",
983996
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.R_density.pdf",
984997
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.S_density.pdf",
998+
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.V_density.pdf",
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"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.W_density.pdf",
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"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.Y_density.pdf",
9871001
"variants/ivar/consensus/ivar/base_qc/DRR030302.consensus.base_counts.pdf",
@@ -1176,7 +1190,7 @@
11761190
"multiqc_ivar_variants.yaml:md5,92e053dd68158082d67218932751c0b8",
11771191
"multiqc_kraken.yaml:md5,bbacecf8e782bb601be23351c164dd6b",
11781192
"multiqc_nextclade_clade.yaml:md5,9acf3d4a4b35cf58df39ffbcef25f9e8",
1179-
"multiqc_quast_quast_variants.yaml:md5,f6b7d4dab81a9f9949c4fe1258721357",
1193+
"multiqc_quast_quast_variants.yaml:md5,0099b6f7d114d93ed03630ea03bfb50c",
11801194
"multiqc_snpeff.yaml:md5,f2884edd8cc7e54e43e0f8c9c978ed61",
11811195
"snpeff_effects.yaml:md5,7e07b5e16d5b394f38067aa6e2a06dc2",
11821196
"snpeff_variant_effects_class.yaml:md5,648eb23e1ee9e601a7c8433aeab532fd",
@@ -1219,30 +1233,30 @@
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"DRR030302.bcftools_stats.txt:md5,e5461f7b6f5e0f00d9e19668542f6cd4",
12201234
"SRR4071760.bcftools_stats.txt:md5,79293406b0726870b6b8cb2428c21009",
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"SRR6937100.bcftools_stats.txt:md5,ba3c0773146055dd90054825eb80ab6b",
1222-
"DRR030302.consensus.fa:md5,8f23545b226f2fe8b5a60dbe335af3c7",
1223-
"SRR4071760.consensus.fa:md5,51956022d7bc094b280d169181f26a5b",
1224-
"SRR6937100.consensus.fa:md5,10d9779c453071703b39ce4ef13b80f8",
1225-
"DRR030302.consensus.N_run.tsv:md5,a7589f421810fc284222cdb94f8f5ddb",
1226-
"DRR030302.consensus.base_counts.tsv:md5,62d3e235756af8f076b1781335adc0aa",
1236+
"DRR030302.consensus.fa:md5,f4a41360a6aef9eb450a0387b77a742d",
1237+
"SRR4071760.consensus.fa:md5,12ed4b25ae57de9c577a79cd88169cc2",
1238+
"SRR6937100.consensus.fa:md5,4871c6fc43180b64b6935bcbd31c25ab",
1239+
"DRR030302.consensus.N_run.tsv:md5,1e4ab2beb124b241ed7a054dc7e4f107",
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"DRR030302.consensus.base_counts.tsv:md5,e0e32793c0e00a82a467656caade1c3e",
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"SRR4071760.consensus.N_run.tsv:md5,a5c01d0082087d971556d0216ae7aa26",
1228-
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1231-
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1232-
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1233-
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1234-
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1235-
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1236-
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1237-
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1238-
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1239-
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1240-
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1241-
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1242-
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1243-
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1244-
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1245-
"SRR6937100.csv:md5,513c3444bed7e8e38a1c43d9374c1e83",
1245+
"DRR030302_mutation_table.csv:md5,d9befda0c3bb710974a44a585e518920",
1246+
"DRR030302_mutation_table_short.csv:md5,c05dc3d86b84a5d9911792bec2bde72e",
1247+
"DRR030302_resistance_table.csv:md5,c5e435805207f3ccf86cd98e4e0e235c",
1248+
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1249+
"SRR4071760_mutation_table_short.csv:md5,654229d827ed326925f30d97c1363c0d",
1250+
"SRR4071760_resistance_table.csv:md5,402f4bdb6933c6cc2243b771b2587867",
1251+
"SRR6937100_mutation_table.csv:md5,d221ffc6bf831f9c45003c214f07aa61",
1252+
"SRR6937100_mutation_table_short.csv:md5,a6a131d1e442512722462b322d2be1f3",
1253+
"SRR6937100_resistance_table.csv:md5,695009d53d79f0648ef62524b97f0538",
1254+
"DRR030302_resistance.json:md5,33e7335a07432498d2d9e357d206bf0b",
1255+
"SRR4071760_resistance.json:md5,87d92a7208761e9d89600159499d9e49",
1256+
"SRR6937100_resistance.json:md5,51689a45b50c07ddb1b54dedf8ce7043",
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"DRR030302.csv:md5,33c59afa2b86b87d2305cab6d9c9e488",
1258+
"SRR4071760.csv:md5,bf9b8691f1df4b0fc7b461c8e3a7fbbb",
1259+
"SRR6937100.csv:md5,895ef34bbeac6c0080ed27c800246258",
12461260
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12471261
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"SRR4071760.variant_counts.log:md5,f0d877c9022632eb41004166bb14b8bf",
@@ -1266,6 +1280,6 @@
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"nf-test": "0.9.3",
12671281
"nextflow": "25.04.8"
12681282
},
1269-
"timestamp": "2025-11-14T10:12:35.469565255"
1283+
"timestamp": "2025-11-25T16:34:34.548874773"
12701284
}
12711285
}

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