Mercurial > repos > iuc > recentrifuge
changeset 4:12f0968f171c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/recentrifuge commit fbb5d7bb68cbb5f497cdda3c0697b21b046a8262
| author | iuc |
|---|---|
| date | Thu, 25 Jan 2024 17:02:43 +0000 |
| parents | b5407cc2bf51 |
| children | 76bf12b928f4 |
| files | macro.xml test-data/centrifuge_test/test2_csv.log test-data/centrifuge_test/test2_csv.rcf.data.csv test-data/centrifuge_test/test4_rcf.data.tsv test-data/centrifuge_test/test4_tsv.html test-data/kraken_test/test1_csv.log test-data/kraken_test/test1_csv.rcf.data.csv test-data/kraken_test/test1_csv.rcf.html test-data/kraken_test/test3_rcf.data.tsv test-data/kraken_test/test3_tsv.log |
| diffstat | 10 files changed, 27 insertions(+), 15 deletions(-) [+] |
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--- a/macro.xml Thu Aug 31 04:46:52 2023 +0000 +++ b/macro.xml Thu Jan 25 17:02:43 2024 +0000 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <macros> - <token name="@TOOL_VERSION@">1.12.1</token> + <token name="@TOOL_VERSION@">1.13.2</token> <token name="@VERSION_SUFFIX@">0</token> <token name="@PROFILE@">21.05</token> <xml name="version_command">
--- a/test-data/centrifuge_test/test2_csv.log Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/centrifuge_test/test2_csv.log Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ -=-= /home/pierre/anaconda3/envs/__recentrifuge@1.9.1/bin/rcf =-= v1.9.1 - Jun 2022 =-= by Jose Manuel Martí =-= +=-= /home/pierre/miniconda3/envs/__recentrifuge@1.13.2/bin/rcf =-= v1.13.2 - Jan 2024 =-= by Jose Manuel Martí =-= [90mCentrifuge .out files to analyze:[0m ['input_dir/centrifuge_out.out'] [90mLoading NCBI nodes...[0m[92m OK! [0m @@ -21,7 +21,7 @@ [0m[93m Warning![0m 210 orphan taxids[90m (rerun with --debug for details) [0minput_dir/centrifuge_out[94m sample [0m[92mOK! -[0m[90mLoad elapsed time: [0m0.0337[90m sec +[0m[90mLoad elapsed time: [0m0.0232[90m sec [0m [90m Building the taxonomy multiple tree... [0m[92mOK![0m
--- a/test-data/centrifuge_test/test2_csv.rcf.data.csv Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/centrifuge_test/test2_csv.rcf.data.csv Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ Samples,input_dir/centrifuge_out,input_dir/centrifuge_out,input_dir/centrifuge_out,Details,Details -Stats,count,unassigned,score,Rank,Name +Stats,cnt,una,sco,Rank,Name Id,,,,, 1,75,0,51.07625068955332,no_rank,root 2,75,0,51.07625068955332,superkingdom,Bacteria
--- a/test-data/centrifuge_test/test4_rcf.data.tsv Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/centrifuge_test/test4_rcf.data.tsv Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ Samples input_dir/centrifuge_1_out input_dir/centrifuge_1_out input_dir/centrifuge_1_out input_dir/centrifuge_2_out input_dir/centrifuge_2_out input_dir/centrifuge_2_out input_dir/centrifuge_out input_dir/centrifuge_out input_dir/centrifuge_out SHARED_species SHARED_species SHARED_species SHARED_genus SHARED_genus SHARED_genus SHARED_family SHARED_family SHARED_family SHARED_order SHARED_order SHARED_order SHARED_class SHARED_class SHARED_class SHARED_phylum SHARED_phylum SHARED_phylum SHARED_SUMMARY SHARED_SUMMARY SHARED_SUMMARY Details Details -Stats count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score count unassigned score Rank Name +Stats cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco cnt una sco Rank Name Id 1 75 0 392.58666666666664 75 0 392.58666666666664 75 0 392.58666666666664 31 0 488.35483870967744 35 0 489.0032653061224 67 0 446.6581994080768 73 0 442.0475236076006 75 0 440.72856742250906 75 0 440.72856742250906 75 0 440.72856742250906 no_rank root 2 75 0 392.58666666666664 75 0 392.58666666666664 75 0 392.58666666666664 31 0 488.35483870967744 35 0 489.0032653061224 67 0 446.6581994080768 73 0 442.0475236076006 75 0 440.72856742250906 75 0 440.72856742250906 75 0 440.72856742250906 superkingdom Bacteria
--- a/test-data/centrifuge_test/test4_tsv.html Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/centrifuge_test/test4_tsv.html Thu Jan 25 17:02:43 2024 +0000 @@ -74,7 +74,7 @@ // //---------------------------------------------------------------------------- // -// Copyright (C) 2017-2022 Jose Manuel Martí Martínez, for the changes in +// Copyright (C) 2017-2024 Jose Manuel Martí Martínez, for the changes in // this file from the Krona Javascript 2.0 release. // // Redistribution and use in source and binary forms, with or without @@ -4999,6 +4999,7 @@ datasets = datasetNames.length; break; + case 'n': case 'node': head = loadTreeDOM ( @@ -5052,6 +5053,7 @@ fontSize = Number(pair[1]); break; + case 'n': case 'node': nodeDefault = Number(pair[1]); break; @@ -5108,6 +5110,9 @@ if (domNode.getAttribute('href')) { newNode.href = domNode.getAttribute('href'); } + else { + newNode.href = 'https://www.google.com/search?q=' + newNode.name + } if (hueName) { newNode.hues = new Array(); @@ -5115,6 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-" style="display:none"><noscript>Javascript must be enabled to view this page.</noscript><div style="display:none"><krona collapse="true" key="true" chart="TAXOMIC"><attributes magnitude="count"><attribute display="Count" dataAll="members" tip="Number of reads assigned to this and child taxa">count</attribute><attribute display="Unassigned" dataNode="members" tip="Number of reads assigned specifically to this taxon">unassigned</attribute><attribute display="TaxID" mono="true" hrefBase="https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=" tip="Taxonomic identifier">tid</attribute><attribute display="Rank" mono="true" tip="Taxonomic rank/level">rank</attribute><attribute display="Read length (avg)" tip="Averaged score of reads assigned to this and child taxa">score</attribute></attributes><datasets rawSamples="3"><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_1_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_2_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_out</dataset><dataset>SHARED_species</dataset><dataset>SHARED_genus</dataset><dataset>SHARED_family</dataset><dataset>SHARED_order</dataset><dataset>SHARED_class</dataset><dataset>SHARED_phylum</dataset><dataset>SHARED_SUMMARY</dataset></datasets><color attribute="score" hueStart="0" hueEnd="300" valueStart="390.6" valueEnd="494.0" default="true"> </color><node name="root" href="https://www.google.com/search?q=root"><count><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></count><unassigned><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></unassigned><tid><val href="1">1</val></tid><rank><val>no_rank</val></rank><score><val>392.6</val><val>392.6</val><val>392.6</val><val>488.4</val><val>489.0</val><val>446.7</val><val>442.0</val><val>440.7</val><val>440.7</val><val>440.7</val></score><node name="Bacteria" href="https://www.google.com/search?q=Bacteria"><count><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></count><unassigned><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></unassigned><tid><val href="2">2</val></tid><rank><val>superkingdom</val></rank><score><val>392.6</val><val>392.6</val><val>392.6</val><val>488.4</val><val>489.0</val><val>446.7</val><val>442.0</val><val>440.7</val><val>440.7</val><val>440.7</val></score><node name="Proteobacteria" href="https://www.google.com/search?q=Proteobacteria"><count><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></count><unassigned><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val>75</val><val></val></unassigned><tid><val href="1224">1224</val></tid><rank><val>phylum</val></rank><score><val>392.6</val><val>392.6</val><val>392.6</val><val>488.4</val><val>489.0</val><val>446.7</val><val>442.0</val><val>440.7</val><val>440.7</val><val>440.7</val></score><node name="Gammaproteobacteria" href="https://www.google.com/search?q=Gammaproteobacteria"><count><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val></val><val>75</val></count><unassigned><val>2</val><val>2</val><val>2</val><val></val><val></val><val></val><val></val><val>75</val><val></val><val>2</val></unassigned><tid><val href="1236">1236</val></tid><rank><val>class</val></rank><score><val>392.6</val><val>392.6</val><val>392.6</val><val>488.4</val><val>489.0</val><val>446.7</val><val>442.0</val><val>440.7</val><val>0</val><val>440.7</val></score><node name="Enterobacteriales" href="https://www.google.com/search?q=Enterobacteriales"><count><val>73</val><val>73</val><val>73</val><val>31</val><val>35</val><val>67</val><val>73</val><val></val><val></val><val>73</val></count><unassigned><val>6</val><val>6</val><val>6</val><val></val><val></val><val></val><val>73</val><val></val><val></val><val>6</val></unassigned><tid><val href="91347">91347</val></tid><rank><val>order</val></rank><score><val>390.6</val><val>390.6</val><val>390.6</val><val>488.4</val><val>489.0</val><val>446.7</val><val>442.0</val><val>0</val><val>0</val><val>442.0</val></score><node name="Enterobacteriaceae" href="https://www.google.com/search?q=Enterobacteriaceae"><count><val>67</val><val>67</val><val>67</val><val>31</val><val>35</val><val>67</val><val></val><val></val><val></val><val>67</val></count><unassigned><val>32</val><val>32</val><val>32</val><val></val><val></val><val>67</val><val></val><val></val><val></val><val>32</val></unassigned><tid><val href="543">543</val></tid><rank><val>family</val></rank><score><val>400.3</val><val>400.3</val><val>400.3</val><val>488.4</val><val>489.0</val><val>446.7</val><val>0</val><val>0</val><val>0</val><val>446.7</val></score><node name="Escherichia" href="https://www.google.com/search?q=Escherichia"><count><val>35</val><val>35</val><val>35</val><val>31</val><val>35</val><val></val><val></val><val></val><val></val><val>35</val></count><unassigned><val>4</val><val>4</val><val>4</val><val></val><val>35</val><val></val><val></val><val></val><val></val><val>4</val></unassigned><tid><val href="561">561</val></tid><rank><val>genus</val></rank><score><val>494.0</val><val>494.0</val><val>494.0</val><val>488.4</val><val>489.0</val><val>0</val><val>0</val><val>0</val><val>0</val><val>489.0</val></score><node name="Escherichia coli" href="https://www.google.com/search?q=Escherichia coli"><count><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></count><unassigned><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></unassigned><tid><val href="562">562</val></tid><rank><val>species</val></rank><score><val>488.4</val><val>488.4</val><val>488.4</val><val>488.4</val><val>0</val><val>0</val><val>0</val><val>0</val><val>0</val><val>488.4</val></score></node></node></node></node></node></node></node></node></krona></div></body></html> \ No newline at end of file +" style="display:none"><noscript>Javascript must be enabled to view this page.</noscript><div style="display:none"><krona collapse="true" key="true" chart="TAXOMIC"><attributes magnitude="cnt"><attribute display="Count" dataAll="members" tip="Number of reads assigned to this and child taxa">cnt</attribute><attribute display="Unassigned" dataNode="members" tip="Number of reads assigned specifically to this taxon">una</attribute><attribute display="TaxID" mono="true" hrefBase="https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=" tip="Taxonomic identifier">tid</attribute><attribute display="Rank" mono="true" tip="Taxonomic rank/level">rnk</attribute><attribute display="Read length (avg)" tip="Averaged score of reads assigned to this and child taxa">sco</attribute></attributes><datasets rawSamples="3"><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_1_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_2_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_out</dataset><dataset>SHARED_species</dataset><dataset>SHARED_genus</dataset><dataset>SHARED_family</dataset><dataset>SHARED_order</dataset><dataset>SHARED_class</dataset><dataset>SHARED_phylum</dataset><dataset>SHARED_SUMMARY</dataset></datasets><color attribute="sco" hueStart="0" hueEnd="300" valueStart="390.6" valueEnd="494.0" default="true"> </color><n name="root"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></una><tid><val href="1">1</val></tid><rnk><val>no_rank</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Bacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></una><tid><val href="2">2</val></tid><rnk><val>superkingdom</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Proteobacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val>75</val><val></val></una><tid><val href="1224">1224</val></tid><rnk><val>phylum</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Gammaproteobacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val></val><val>75</val></cnt><una><val>2</val><val>2</val><val>2</val><val></val><val></val><val></val><val></val><val>75</val><val></val><val>2</val></una><tid><val href="1236">1236</val></tid><rnk><val>class</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>0</val><val>440.73</val></sco><n name="Enterobacteriales"><cnt><val>73</val><val>73</val><val>73</val><val>31</val><val>35</val><val>67</val><val>73</val><val></val><val></val><val>73</val></cnt><una><val>6</val><val>6</val><val>6</val><val></val><val></val><val></val><val>73</val><val></val><val></val><val>6</val></una><tid><val href="91347">91347</val></tid><rnk><val>order</val></rnk><sco><val>390.56</val><val>390.56</val><val>390.56</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>0</val><val>0</val><val>442.05</val></sco><n name="Enterobacteriaceae"><cnt><val>67</val><val>67</val><val>67</val><val>31</val><val>35</val><val>67</val><val></val><val></val><val></val><val>67</val></cnt><una><val>32</val><val>32</val><val>32</val><val></val><val></val><val>67</val><val></val><val></val><val></val><val>32</val></una><tid><val href="543">543</val></tid><rnk><val>family</val></rnk><sco><val>400.34</val><val>400.34</val><val>400.34</val><val>488.35</val><val>489.00</val><val>446.66</val><val>0</val><val>0</val><val>0</val><val>446.66</val></sco><n name="Escherichia"><cnt><val>35</val><val>35</val><val>35</val><val>31</val><val>35</val><val></val><val></val><val></val><val></val><val>35</val></cnt><una><val>4</val><val>4</val><val>4</val><val></val><val>35</val><val></val><val></val><val></val><val></val><val>4</val></una><tid><val href="561">561</val></tid><rnk><val>genus</val></rnk><sco><val>494.03</val><val>494.03</val><val>494.03</val><val>488.35</val><val>489.00</val><val>0</val><val>0</val><val>0</val><val>0</val><val>489.00</val></sco><n name="Escherichia coli"><cnt><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></cnt><una><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></una><tid><val href="562">562</val></tid><rnk><val>species</val></rnk><sco><val>488.35</val><val>488.35</val><val>488.35</val><val>488.35</val><val>0</val><val>0</val><val>0</val><val>0</val><val>0</val><val>488.35</val></sco></n></n></n></n></n></n></n></n></krona></div></body></html> \ No newline at end of file
--- a/test-data/kraken_test/test1_csv.log Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/kraken_test/test1_csv.log Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ -=-= /home/pierre/anaconda3/envs/__recentrifuge@1.9.1/bin/rcf =-= v1.9.1 - Jun 2022 =-= by Jose Manuel Martí =-= +=-= /home/pierre/miniconda3/envs/__recentrifuge@1.13.2/bin/rcf =-= v1.13.2 - Jan 2024 =-= by Jose Manuel Martí =-= [90mKraken .krk files to analyze:[0m ['input_dir/kraken_out.krk'] [90mLoading NCBI nodes...[0m[92m OK! [0m @@ -22,7 +22,7 @@ [0m[93m Warning![0m 11 orphan taxids[90m (rerun with --debug for details) [0minput_dir/kraken_out[94m sample [0m[92mOK! -[0m[90mLoad elapsed time: [0m0.00392[90m sec +[0m[90mLoad elapsed time: [0m0.00283[90m sec [0m [90m Building the taxonomy multiple tree... [0m[92mOK![0m
--- a/test-data/kraken_test/test1_csv.rcf.data.csv Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/kraken_test/test1_csv.rcf.data.csv Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ Samples,input_dir/kraken_out,input_dir/kraken_out,input_dir/kraken_out,Details,Details -Stats,count,unassigned,score,Rank,Name +Stats,cnt,una,sco,Rank,Name Id,,,,, 1,9,0,13.614815253856928,no_rank,root 2,9,0,13.614815253856928,superkingdom,Bacteria
--- a/test-data/kraken_test/test1_csv.rcf.html Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/kraken_test/test1_csv.rcf.html Thu Jan 25 17:02:43 2024 +0000 @@ -74,7 +74,7 @@ // //---------------------------------------------------------------------------- // -// Copyright (C) 2017-2022 Jose Manuel Martí Martínez, for the changes in +// Copyright (C) 2017-2024 Jose Manuel Martí Martínez, for the changes in // this file from the Krona Javascript 2.0 release. // // Redistribution and use in source and binary forms, with or without @@ -4999,6 +4999,7 @@ datasets = datasetNames.length; break; + case 'n': case 'node': head = loadTreeDOM ( @@ -5052,6 +5053,7 @@ fontSize = Number(pair[1]); break; + case 'n': case 'node': nodeDefault = Number(pair[1]); break; @@ -5108,6 +5110,9 @@ if (domNode.getAttribute('href')) { newNode.href = domNode.getAttribute('href'); } + else { + newNode.href = 'https://www.google.com/search?q=' + newNode.name + } if (hueName) { newNode.hues = new Array(); @@ -5115,6 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href="543">543</val></tid><rnk><val>family</val></rnk><sco><val>13.61</val></sco></n></n></n></n></n></n></krona></div></body></html> \ No newline at end of file
--- a/test-data/kraken_test/test3_rcf.data.tsv Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/kraken_test/test3_rcf.data.tsv Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ Samples input_dir/kraken_out input_dir/kraken_out input_dir/kraken_out Details Details -Stats count unassigned score Rank Name +Stats cnt una sco Rank Name Id 1 9 0 2.7230463906265316 no_rank root 2 9 0 2.7230463906265316 superkingdom Bacteria
--- a/test-data/kraken_test/test3_tsv.log Thu Aug 31 04:46:52 2023 +0000 +++ b/test-data/kraken_test/test3_tsv.log Thu Jan 25 17:02:43 2024 +0000 @@ -1,5 +1,5 @@ -=-= /home/pierre/anaconda3/envs/__recentrifuge@1.9.1/bin/rcf =-= v1.9.1 - Jun 2022 =-= by Jose Manuel Martí =-= +=-= /home/pierre/miniconda3/envs/__recentrifuge@1.13.2/bin/rcf =-= v1.13.2 - Jan 2024 =-= by Jose Manuel Martí =-= [93mCAUTION![0m --strain experimental mode activated! [90mKraken .krk files to analyze:[0m ['input_dir/kraken_out.krk'] @@ -23,7 +23,7 @@ [0m[93m Warning![0m 11 orphan taxids[90m (rerun with --debug for details) [0minput_dir/kraken_out[94m sample [0m[92mOK! -[0m[90mLoad elapsed time: [0m0.00395[90m sec +[0m[90mLoad elapsed time: [0m0.00424[90m sec [0m [90m Building the taxonomy multiple tree... [0m[92mOK![0m