Su Na MajoroMask
MajoroMask
/ y.kraken2.report.txt
Created
December 11, 2023 05:56
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| 99.98 298629 298629 0 0 U 0 unclassified | |
| 0.02 63 0 2852 1524 R 1 root | |
| 0.02 63 0 2852 1524 D 10239 Viruses | |
| 0.02 61 0 2372 1261 D1 2731341 Duplodnaviria | |
| 0.02 61 0 2372 1261 K 2731360 Heunggongvirae | |
| 0.02 61 0 2323 1235 P 2731618 Uroviricota | |
| 0.02 61 5 2323 1235 C 2731619 Caudoviricetes | |
| 0.01 26 0 654 436 O 1978007 Crassvirales | |
| 0.01 22 0 530 337 F 2942966 Suoliviridae | |
| 0.01 22 4 520 332 F1 2942975 Oafivirinae |
MajoroMask
/ x.kraken2.report.txt
Created
December 11, 2023 05:55
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| 99.97 412426 412426 0 0 U 0 unclassified | |
| 0.03 129 0 5007 2682 R 1 root | |
| 0.03 129 1 5007 2682 D 10239 Viruses | |
| 0.03 125 0 4402 2358 D1 2731341 Duplodnaviria | |
| 0.03 125 0 4402 2358 K 2731360 Heunggongvirae | |
| 0.03 125 0 4361 2334 P 2731618 Uroviricota | |
| 0.03 125 10 4361 2334 C 2731619 Caudoviricetes | |
| 0.01 51 0 1589 1190 O 1978007 Crassvirales | |
| 0.01 42 0 1168 883 F 2942966 Suoliviridae | |
| 0.01 42 3 1155 874 F1 2942975 Oafivirinae |
MajoroMask
/ 2613_se_metaphlan4-db.metaphlan_profile.txt
Created
October 8, 2023 01:28
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| #mpa_vOct22_CHOCOPhlAnSGB_202212 | |
| #/usr/local/bin/metaphlan --nproc 6 --input_type fastq 2613_ERR5766181.unmapped.fastq.gz --bowtie2out 2613_se_metaphlan4-db.metaphlan.bowtie2out.txt --bowtie2db metaphlan4 --index mpa_vOct22_CHOCOPhlAnSGB_202212 --biom 2613_se_metaphlan4-db.metaphlan.biom --output_file 2613_se_metaphlan4-db.metaphlan_profile.txt | |
| #265493 reads processed | |
| #SampleID Metaphlan_Analysis | |
| #clade_name NCBI_tax_id relative_abundance additional_species | |
| k__Bacteria 2 69.12967 | |
| k__Archaea 2157 30.87033 | |
| k__Archaea|p__Euryarchaeota 2157|28890 30.87033 | |
| k__Bacteria|p__Actinobacteria 2|201174 26.69296 | |
| k__Bacteria|p__Firmicutes 2|1239 21.84616 |
MajoroMask
/ 2612_se_metaphlan4-db.metaphlan_profile.txt
Created
October 8, 2023 01:26
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| #mpa_vOct22_CHOCOPhlAnSGB_202212 | |
| #/usr/local/bin/metaphlan --nproc 6 --input_type fastq 2612.merged.fastq.gz --bowtie2out 2612_se_metaphlan4-db.metaphlan.bowtie2out.txt --bowtie2db metaphlan4 --index mpa_vOct22_CHOCOPhlAnSGB_202212 --biom 2612_se_metaphlan4-db.metaphlan.biom --output_file 2612_se_metaphlan4-db.metaphlan_profile.txt | |
| #707440 reads processed | |
| #SampleID Metaphlan_Analysis | |
| #clade_name NCBI_tax_id relative_abundance additional_species | |
| k__Bacteria 2 89.92809 | |
| k__Archaea 2157 10.07191 | |
| k__Bacteria|p__Bacteroidetes 2|976 31.03622 | |
| k__Bacteria|p__Actinobacteria 2|201174 29.64669 | |
| k__Bacteria|p__Firmicutes 2|1239 27.90168 |
MajoroMask
/ gist:9c7f164ce42a9f99c537c60254f39a53
Created
October 7, 2023 06:58
Error message from `taxpasta merge`
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| ╭───────────────────── Traceback (most recent call last) ──────────────────────╮ | |
| │ /usr/local/lib/python3.11/site-packages/taxpasta/infrastructure/cli/merge.py │ | |
| │ :448 in merge │ | |
| │ │ | |
| │ 445 │ │ logger.critical("Less than two profiles are without errors. No │ | |
| │ 446 │ │ raise typer.Exit(code=1) │ | |
| │ 447 │ │ | |
| │ ❱ 448 │ result = handling_app.merge_samples(samples, wide_format) │ | |
| │ 449 │ │ | |
| │ 450 │ if valid_output_format is not WideObservationTableFileFormat.BIOM: │ |
MajoroMask
/ gist:e66f8a6160cb355ce7a6f97ef0a29474
Created
October 5, 2023 02:11
my test log of taxprofiler/taxprofiler
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| [7f/f642cb] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (test-db-ganon.tar.gz) | |
| [a2/c3dccb] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:INPUT_CHECK:SAMPLESHEET_CHECK (samplesheet.csv) | |
| [f5/f3abe6] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:SHORTREAD_HOSTREMOVAL:BOWTIE2_BUILD (genome.fasta) | |
| [46/232b02] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (test-db-centrifuge.tar.gz) | |
| [e7/c10e2f] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (metaphlan_database.tar.gz) | |
| [75/06f0ba] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (testdb-kraken2.tar.gz) | |
| [e2/c62873] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (test-db-kmcp.tar.gz) | |
| [57/232ab0] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (metaphlan4_database.tar.gz) | |
| [8e/4f267f] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:DB_CHECK:UNTAR (kaiju.tar.gz) | |
| [27/a343eb] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:LONGREAD_HOSTREMOVAL: |