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Changeset 2:78ff575ef835 (2024-02-26)

Previous changeset 1:49b97737747d (2023-12-18) Next changeset 3:d8334b328618 (2024-03-16)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ampvis2 commit 5b6fb9641a1320e13aba367c4e7bc52ae064acc6

added:
test-data/AalborgWWTPs-heatmap-normalise_by_sample.pdf
test-data/dada2-assignTaxonomy.tabular
test-data/dada2-metadata.tsv
test-data/dada2-removeBimeraDenovo.tab
test-data/output.phyloseq

diff -r 49b97737747d -r 78ff575ef835 macros.xml
--- a/macros.xml Mon Dec 18 09:40:02 2023 +0000
+++ b/macros.xml Mon Feb 26 07:55:14 2024 +0000

[

@@ -1,6 +1,6 @@
<macros>
-    <token name="@TOOL_VERSION@">2.7.22</token>
-    <token name="@VERSION_SUFFIX@">1</token>
+    <token name="@TOOL_VERSION@">2.8.6</token>
+    <token name="@VERSION_SUFFIX@">0</token>
     <token name="@PROFILE@">22.01</token>
     <xml name="header">
         <xrefs>
@@ -8,7 +8,8 @@
         </xrefs>
         <requirements>
             <requirement type="package" version="@TOOL_VERSION@">r-ampvis2</requirement>
-            <requirement type="package" version="2.1.1">r-readr</requirement>
+            <requirement type="package" version="2.1.5">r-readr</requirement>
+            <requirement type="package" version="1.46.0">bioconductor-phyloseq</requirement>
         </requirements>
         <version_command><![CDATA[
echo $(R --version | grep "R version")", ampvis2 version" $(R --vanilla --slave -e "library(ampvis2, quietly = TRUE); sessionInfo()\$otherPkgs\$ampvis2\$Version" 2> /dev/null | grep -v -i "WARNING: ")
@@ -36,7 +37,7 @@
     <token name="@SAVE_TAX_LIST@"><![CDATA[
                 for(level in colnames(data\$tax)){
                     for(u in unique(data\$tax[level])){
-                        write(u, file="$taxonomy_list_out", append=T)
+                        write(paste(u, level, sep="\t"), file="$taxonomy_list_out", append=T)
                     }
                 }
     ]]></token>
@@ -152,7 +153,20 @@
         </expand>
     </xml>

+    
     <xml name="metadata_sample_select" token_argument="">
+        <param argument="@ARGUMENT@" type="select" optional="true">
+            <options from_dataset="metadata_list">
+                <column name="name" index="1"/>
+                <column name="value" index="1"/>
+                <filter type="static_value" value="TRUE" column="2"/> 
+                <filter type="unique_value" column="1"/>
+            </options>
+        </param>
+    </xml>
+    <xml name="metadata_sample_or_variable_select" token_argument="">
         <conditional name="@ARGUMENT@_cond">
             <param name="@ARGUMENT@_sel" type="select">
                 <option value="no">No</option>
@@ -164,14 +178,7 @@
                 <expand macro="metadata_select" argument="@ARGUMENT@" label="Metadata variable"/>
             </when>
             <when value="sample">
-                <param argument="@ARGUMENT@" type="select" optional="true">
-                    <options from_dataset="metadata_list">
-                        <column name="name" index="1"/>
-                        <column name="value" index="1"/>
-                        <filter type="static_value" value="TRUE" column="2"/> 
-                        <filter type="unique_value" column="1"/>
-                    </options>
-                </param>
+                <expand macro="metadata_sample_select"/>
             </when>
         </conditional>
     </xml>

diff -r 49b97737747d -r 78ff575ef835 merge_ampvis2.xml
--- a/merge_ampvis2.xml Mon Dec 18 09:40:02 2023 +0000
+++ b/merge_ampvis2.xml Mon Feb 26 07:55:14 2024 +0000

@@ -23,6 +23,7 @@
     <inputs>
         <expand macro="rds_input_macro" multiple="true"/>
         <param argument="by_refseq" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="true" label="Merge by exact matches between DNA reference sequences" help="The full DNA sequences will then be used as the new names in the output."/>
+        
     </inputs>
     <outputs>
         <data name="output" format="ampvis2"/>

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-octave.svg
--- a/test-data/AalborgWWTPs-octave.svg Mon Dec 18 09:40:02 2023 +0000
+++ b/test-data/AalborgWWTPs-octave.svg Mon Feb 26 07:55:14 2024 +0000

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-taxonomy.list
--- a/test-data/AalborgWWTPs-taxonomy.list Mon Dec 18 09:40:02 2023 +0000
+++ b/test-data/AalborgWWTPs-taxonomy.list Mon Feb 26 07:55:14 2024 +0000

[

b'@@ -1,495 +1,495 @@\n-k__Bacteria\n-p__Firmicutes\n-p__Bacteroidetes\n-p__Proteobacteria\n-p__Actinobacteria\n-p__Hydrogenedentes\n-p__Parcubacteria\n-p__Planctomycetes\n-p__Acidobacteria\n-p__Chloroflexi\n-\n-p__Saccharibacteria\n-p__Candidate division SR1\n-p__Cyanobacteria\n-p__Synergistetes\n-p__Deinococcus-Thermus\n-p__Chlorobi\n-p__Verrucomicrobia\n-p__GOUTA4\n-p__Nitrospirae\n-p__WCHB1-60\n-p__Elusimicrobia\n-p__SM2F11\n-p__TM6\n-p__Armatimonadetes\n-p__Fusobacteria\n-p__Tenericutes\n-p__Lentisphaerae\n-p__Microgenomates\n-c__Clostridia\n-c__Cytophagia\n-c__Betaproteobacteria\n-c__Actinobacteria\n-c__Gammaproteobacteria\n-c__Deltaproteobacteria\n-c__Bacilli\n-c__\n-c__Sphingobacteriia\n-c__Planctomycetacia\n-c__Holophagae\n-c__Chloroflexia\n-c__Caldilineae\n-\n-c__Anaerolineae\n-c__Flavobacteriia\n-c__Negativicutes\n-c__Alphaproteobacteria\n-c__Unknown Class\n-c__Cyanobacteria\n-c__Synergistia\n-c__Thermoleophilia\n-c__Acidimicrobiia\n-c__Bacteroidia\n-c__Phycisphaerae\n-c__WCHB1-50\n-c__Deinococci\n-c__Ignavibacteria\n-c__Verrucomicrobiae\n-c__Coriobacteriia\n-c__TA18\n-c__Acidobacteria\n-c__Nitrospira\n-c__Chlorobia\n-c__Elusimicrobia\n-c__Erysipelotrichia\n-c__BSV13\n-c__Thermomicrobia\n-c__OPB35 soil group\n-c__Fusobacteriia\n-c__Mollicutes\n-c__PBS-III-20\n-c__Chloroplast\n-o__Clostridiales\n-o__Cytophagales\n-o__Nitrosomonadales\n-o__Micrococcales\n-o__Xanthomonadales\n-o__Desulfobacterales\n-o__Bacillales\n-o__\n-o__Sphingobacteriales\n-o__Planctomycetales\n-o__Holophagales\n-o__Propionibacteriales\n-o__Chloroflexales\n-o__PeM15\n-o__Caldilineales\n-o__Rhodocyclales\n-\n-o__Myxococcales\n-o__Lactobacillales\n-o__Anaerolineales\n-o__Flavobacteriales\n-o__Selenomonadales\n-o__Rhodospirillales\n-o__Unknown Order\n-o__SubsectionIII\n-o__Burkholderiales\n-o__Rickettsiales\n-o__Rhizobiales\n-o__Synergistales\n-o__Gaiellales\n-o__Acidimicrobiales\n-o__Bacteroidales\n-o__Phycisphaerales\n-o__WCHB1-50\n-o__Thermales\n-o__Ignavibacteriales\n-o__Bdellovibrionales\n-o__Verrucomicrobiales\n-o__Coriobacteriales\n-o__Subgroup 6\n-o__Nitrospirales\n-o__WD2101 soil group\n-o__Actinomycetales\n-o__Chlorobiales\n-o__Subgroup 10\n-o__Lineage IIb\n-o__Oligoflexales\n-o__Solirubrobacterales\n-o__Erysipelotrichales\n-o__Corynebacteriales\n-o__JG30-KF-CM45\n-o__FW73\n-o__Fusobacteriales\n-o__Mollicutes 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XIII\n-f__Sandaracinaceae\n-f__Bdellovibrionaceae\n-f__Mitochondria\n-f__Verrucomicrobiaceae\n-f__Coriobacteriaceae\n-f__Nordellaceae\n-f__Clostridiaceae 1\n-f__Peptostreptococcaceae\n-f__Holosporaceae\n-f__Nitrospiraceae\n-f__Porphyromonadaceae\n-f__Actinomycetaceae\n-f__Family XI\n-f__Chlorobiaceae\n-f__NS9 marine group\n-f__Rhodospirillales Incertae Sedis\n-f__ABS-19\n-f__Haliangiaceae\n-f__Bacillaceae\n-f__480-2\n-f__Erysipelotrichaceae\n-f__Acidimicrobiaceae\n-f__Bacteroidaceae\n-f__Nocardiaceae\n-f__bacteriap25\n-f__Christensenellaceae\n-f__Rhodospirillaceae\n-f__Beutenbergiaceae\n-f__Leptotrichiaceae\n-f__Oligoflexaceae\n-f__Neisseriaceae\n-f__AKIW1012\n-f__Microthricaceae\n-f__OPB56\n-g__Acetitomaculum\n-g__Ruminococcaceae UCG-005\n-g__Dyadobacter\n-g__Nitrosomonas\n-g__Tetrasphaera\n-\n-g__Desulforegula\n-g__Rummeliibacillus\n-g__\n-g__Fusicatenibacter\n-g__Ruminiclostridium 1\n-g__uncultured\n-g__Brooklawnia\n-g__Sulfuritalea\n'..b'onas\tGenus\n+g__Pirellula\tGenus\n+g__Clostridium sensu stricto 1\tGenus\n+g__Acetoanaerobium\tGenus\n+g__Nitrospira\tGenus\n+g__Propioniciclava\tGenus\n+g__Parabacteroides\tGenus\n+g__Actinomyces\tGenus\n+g__Aeromicrobium\tGenus\n+g__Clostridium sensu stricto 6\tGenus\n+g__Reyranella\tGenus\n+g__Proteiniclasticum\tGenus\n+g__B1-K1A-105\tGenus\n+g__Prevotellaceae UCG-004\tGenus\n+g__Haliangium\tGenus\n+g__Ureibacillus\tGenus\n+g__Ruminococcus 2\tGenus\n+g__CYCU-0281\tGenus\n+g__Parafilimonas\tGenus\n+g__Aestuariimicrobium\tGenus\n+g__Diaminobutyricimonas\tGenus\n+g__K2-78\tGenus\n+g__Erysipelatoclostridium\tGenus\n+g__CL500-29 marine group\tGenus\n+g__Bacteroides\tGenus\n+g__Tessaracoccus\tGenus\n+g__Gordonia\tGenus\n+g__Senegalimassilia\tGenus\n+g__Atopobium\tGenus\n+g__Proteiniphilum\tGenus\n+g__Uliginosibacterium\tGenus\n+g__WCHB1-50\tGenus\n+g__Christensenellaceae R-7 group\tGenus\n+g__Fodinibacter\tGenus\n+g__Defluviicoccus\tGenus\n+g__Acidovorax\tGenus\n+g__Salana\tGenus\n+g__Propionimicrobium\tGenus\n+g__Litorilinea\tGenus\n+g__Faecalitalea\tGenus\n+g__Ruminiclostridium 5\tGenus\n+g__Rivicola\tGenus\n+g__[Eubacterium] coprostanoligenes group\tGenus\n+g__Lewinella\tGenus\n+s__\tSpecies\n+\tSpecies\n+s__sublineage I\tSpecies\n+s__cluster I\tSpecies\n+OTU_8735\tOTU\n+OTU_13382\tOTU\n+OTU_5516\tOTU\n+OTU_8315\tOTU\n+OTU_10522\tOTU\n+OTU_11040\tOTU\n+OTU_7263\tOTU\n+OTU_13379\tOTU\n+OTU_1418\tOTU\n+OTU_556\tOTU\n+OTU_6869\tOTU\n+OTU_10171\tOTU\n+OTU_2830\tOTU\n+OTU_4232\tOTU\n+OTU_12831\tOTU\n+OTU_613\tOTU\n+OTU_3625\tOTU\n+OTU_3605\tOTU\n+OTU_11148\tOTU\n+OTU_656\tOTU\n+OTU_4382\tOTU\n+OTU_3834\tOTU\n+OTU_13127\tOTU\n+OTU_4528\tOTU\n+OTU_4485\tOTU\n+OTU_12265\tOTU\n+OTU_11820\tOTU\n+OTU_4093\tOTU\n+OTU_8360\tOTU\n+OTU_15123\tOTU\n+OTU_11928\tOTU\n+OTU_11334\tOTU\n+OTU_4511\tOTU\n+OTU_3265\tOTU\n+OTU_2991\tOTU\n+OTU_522\tOTU\n+OTU_11832\tOTU\n+OTU_6358\tOTU\n+OTU_3611\tOTU\n+OTU_1408\tOTU\n+OTU_7471\tOTU\n+OTU_14124\tOTU\n+OTU_13012\tOTU\n+OTU_8113\tOTU\n+OTU_11414\tOTU\n+OTU_2232\tOTU\n+OTU_13504\tOTU\n+OTU_173\tOTU\n+OTU_11006\tOTU\n+OTU_9035\tOTU\n+OTU_8165\tOTU\n+OTU_1707\tOTU\n+OTU_4805\tOTU\n+OTU_7801\tOTU\n+OTU_6106\tOTU\n+OTU_9681\tOTU\n+OTU_4039\tOTU\n+OTU_4338\tOTU\n+OTU_1634\tOTU\n+OTU_684\tOTU\n+OTU_496\tOTU\n+OTU_3941\tOTU\n+OTU_4193\tOTU\n+OTU_9455\tOTU\n+OTU_7842\tOTU\n+OTU_13494\tOTU\n+OTU_1285\tOTU\n+OTU_132\tOTU\n+OTU_10641\tOTU\n+OTU_236\tOTU\n+OTU_462\tOTU\n+OTU_161\tOTU\n+OTU_13660\tOTU\n+OTU_9412\tOTU\n+OTU_7504\tOTU\n+OTU_318\tOTU\n+OTU_7070\tOTU\n+OTU_288\tOTU\n+OTU_2415\tOTU\n+OTU_95\tOTU\n+OTU_3982\tOTU\n+OTU_4278\tOTU\n+OTU_2887\tOTU\n+OTU_5684\tOTU\n+OTU_4220\tOTU\n+OTU_7051\tOTU\n+OTU_11398\tOTU\n+OTU_4669\tOTU\n+OTU_4697\tOTU\n+OTU_6765\tOTU\n+OTU_1066\tOTU\n+OTU_5907\tOTU\n+OTU_4933\tOTU\n+OTU_8885\tOTU\n+OTU_4226\tOTU\n+OTU_1821\tOTU\n+OTU_1794\tOTU\n+OTU_3925\tOTU\n+OTU_3353\tOTU\n+OTU_7163\tOTU\n+OTU_541\tOTU\n+OTU_1521\tOTU\n+OTU_14421\tOTU\n+OTU_2972\tOTU\n+OTU_8291\tOTU\n+OTU_289\tOTU\n+OTU_1306\tOTU\n+OTU_4839\tOTU\n+OTU_11689\tOTU\n+OTU_12665\tOTU\n+OTU_2085\tOTU\n+OTU_448\tOTU\n+OTU_6935\tOTU\n+OTU_190\tOTU\n+OTU_4458\tOTU\n+OTU_927\tOTU\n+OTU_5113\tOTU\n+OTU_1875\tOTU\n+OTU_9228\tOTU\n+OTU_1845\tOTU\n+OTU_6255\tOTU\n+OTU_1479\tOTU\n+OTU_14146\tOTU\n+OTU_6507\tOTU\n+OTU_7542\tOTU\n+OTU_13718\tOTU\n+OTU_4593\tOTU\n+OTU_2343\tOTU\n+OTU_8708\tOTU\n+OTU_2677\tOTU\n+OTU_9665\tOTU\n+OTU_81\tOTU\n+OTU_6422\tOTU\n+OTU_1612\tOTU\n+OTU_3216\tOTU\n+OTU_9248\tOTU\n+OTU_5187\tOTU\n+OTU_7882\tOTU\n+OTU_1543\tOTU\n+OTU_11775\tOTU\n+OTU_233\tOTU\n+OTU_4015\tOTU\n+OTU_8260\tOTU\n+OTU_9548\tOTU\n+OTU_5643\tOTU\n+OTU_1586\tOTU\n+OTU_3782\tOTU\n+OTU_2934\tOTU\n+OTU_14570\tOTU\n+OTU_11781\tOTU\n+OTU_3700\tOTU\n+OTU_6318\tOTU\n+OTU_2148\tOTU\n+OTU_2244\tOTU\n+OTU_7867\tOTU\n+OTU_14248\tOTU\n+OTU_12704\tOTU\n+OTU_364\tOTU\n+OTU_8245\tOTU\n+OTU_10847\tOTU\n+OTU_1151\tOTU\n+OTU_1998\tOTU\n+OTU_10321\tOTU\n+OTU_4721\tOTU\n+OTU_6237\tOTU\n+OTU_1972\tOTU\n+OTU_11364\tOTU\n+OTU_1816\tOTU\n+OTU_14842\tOTU\n+OTU_6533\tOTU\n+OTU_8887\tOTU\n+OTU_12690\tOTU\n+OTU_3097\tOTU\n+OTU_3257\tOTU\n+OTU_3161\tOTU\n+OTU_11903\tOTU\n+OTU_7508\tOTU\n+OTU_10969\tOTU\n+OTU_1801\tOTU\n+OTU_3488\tOTU\n+OTU_933\tOTU\n+OTU_3824\tOTU\n+OTU_777\tOTU\n+OTU_3169\tOTU\n+OTU_12385\tOTU\n+OTU_1496\tOTU\n+OTU_11294\tOTU\n+OTU_1968\tOTU\n+OTU_8832\tOTU\n+OTU_8652\tOTU\n+OTU_13621\tOTU\n+OTU_3043\tOTU\n+OTU_10760\tOTU\n+OTU_14173\tOTU\n+OTU_10746\tOTU\n+OTU_284\tOTU\n+OTU_5049\tOTU\n+OTU_2397\tOTU\n+OTU_2913\tOTU\n+OTU_9512\tOTU\n'

diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-timeseries-group.pdf

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-timeseries-tax.pdf

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-timeseries.pdf

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-venn-group.pdf

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs-venn.pdf

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs.rds

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diff -r 49b97737747d -r 78ff575ef835 test-data/AalborgWWTPs.tsv
--- a/test-data/AalborgWWTPs.tsv Mon Dec 18 09:40:02 2023 +0000
+++ b/test-data/AalborgWWTPs.tsv Mon Feb 26 07:55:14 2024 +0000

@@ -1,4 +1,4 @@
-SampleID Plant Date Year Period
+ Plant Date Year Period
16SAMP-747 16SAMP-747 Aalborg East 2010-02-04 2010 Winter
16S-AMP-1168 16S-AMP-1168 Aalborg West 2013-05-06 2013 Spring
16SAMP-4603 16SAMP-4603 Aalborg East 2014-08-19 2014 Summer

diff -r 49b97737747d -r 78ff575ef835 test-data/dada2-assignTaxonomy.tabular
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/dada2-assignTaxonomy.tabular Mon Feb 26 07:55:14 2024 +0000

b'@@ -0,0 +1,233 @@\n+\tKingdom\tPhylum\tClass\tOrder\tFamily\tGenus\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGCAGGCGGAAGATCAAGTCAGCGGTAAAATTGAGAGGCTCAACCTCTTCGAGCCGTTGAAACTGGTTTTCTTGAGTGAGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCTCAACTGACGCTCATGCACGAAAGTGTGGGTATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGCAGGCGGACTCTCAAGTCAGCGGTCAAATCGCGGGGCTCAACCCCGTTCCGCCGTTGAAACTGGGAGCCTTGAGTGCGCGAGAAGTAGGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCCTACCGGCGCGCAACTGACGCTCATGCACGAAAGCGTGGGTATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGCTGTTAAGTCAGCGGTCAAATGTCGGGGCTCAACCCCGGCCTGCCGTTGAAACTGGCGGCCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCGACTGACGCTGAGGCACGAAAGCGTGGGTATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGCTTTTAAGTCAGCGGTAAAAATTCGGGGCTCAACCCCGTCCGGCCGTTGAAACTGGGGGCCTTGAGTGGGCGAGAAGAAGGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCCTTCCGGCGCCCTACTGACGCTGAGGCACGAAAGTGCGGGGATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGGTGGATTGTTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGAAACTGGCAGTCTTGAGTACAGTAGAGGTGGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCTCACTGGACTGCAACTGACACTGATGCTCGAAAGTGTGGGTATCAAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tBacteroidaceae\tBacteroides\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGCCTGCCAAGTCAGCGGTAAAATTGCGGGGCTCAACCCCGTACAGCCGTTGAAACTGCCGGGCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAGGCACGAAAGTGCGGGGATCAAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGATGCCAAGTCAGCGGTAAAAAAGCGGTGCTCAACGCCGTCGAGCCGTTGAAACTGGCGTTCTTGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAGGCACGAAAGCGTGGGTATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATTCAAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGTTCGATAAGTTAGAGGTGAAATCCCGGGGCTCAACTCCGGCACTGCCTCTGATACTGTCGGGCTAGAGTTTAGTTGCGGTAGGCGGAATGTATGGTGTAGCGGTGAAATGCATAGAGATCATACAGAACACCGATTGCGAAGGCAGCTTACCAAACTACGACTGACGTTGAGGCACGAAAGCGTGGGGAGCAAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tRikenellaceae\tAlistipes\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGATCGTTAAGTCAGTGGTCAAATTGAGGGGCTCAACCCCTTCCCGCCATTGAAACTGGCGATCTTGAGTGGAAGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATGCCGGCTTCCTACTGACGCTGAAGCACGAAAGCGTGGGGATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGATGTCAAGTCAGCGGTAAAATTGTGGAGCTCAACTCCATCGAGCCGTTGAAACTGACGTTCTTGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAAGCACGAAAGCGTGGGTATCGAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGTGCAGGCGGTTCAATAAGTCTGATGTGAAAGCCTTCGGCTCAACCGGAGAATTGCATCAGAAACTGTTGAACTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGG\tBacteria\tFirmicutes\tBacilli\tLactobacillales\tLactobacillaceae\tLactobacillus\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGCCTGCCAAGTCAGCGGTAAAATTGCGGGGCTCAACCCCGTACAGCCGTTGAAACTGCCGGGCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATACCGGCGCCCGACTGACGCTGAGGCACGAAAGTGCGGGGATCAAACAGG\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+TACGTAGGTGGCAAGCGTTATCCGGATTTATTGGGCGTAAAGGGAACGCAGGCGGTCTTTTAAGTCTGATG'..b'CATTTGAAACTGTTTTTCTTGAGTGCTGGAGAGGCAATCGGAATTCCGTGTGTAGCGGTGAAATGCGTAGATATACGGAGGAACACCAGTGGCGAAGGCGGATTGCTGGACAGTAACTGACGCTGAGGCGCGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tOscillospirales\tOscillospiraceae\tNA\n+TACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGTGCGTAGGTGGCAGGGCAAGTCAGATGTGAAAGCCCGGGGCTCAACCCCGGTACTGCATTTGAAACTGTCCAGCTGGAGTGCAGGAGAGGTAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tLachnospirales\tLachnospiraceae\tAnaerostipes\n+GACAGAGGATGCAAGCGTTATCCGGAATGATTGGGCGTAAAGCGTCTGTAGGTGGCTTTTTAAGTCCGCCGTCAAATCCCAGGGCTCAACCCTGGACAGGCGGTGGAAACTACCAAGCTGGAGTACGGTAGGGGCAGAGGGAATTTCCGGTGGAGCGGTGAAATGCGTAGAGATCGGAAAGAACACCAACGGCGAAAGCACTCTGCTGGGCCGACACTGACACTGAGAGACGAAAGCTAGGGGAGCGAATGGG\tBacteria\tCyanobacteria\tCyanobacteriia\tChloroplast\tNA\tNA\n+TACGTATGGAGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGCAGGCGGCATGGCAAGTCAGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTTGAAACTGTCAGGCTAGAGTGCAGGAGAGGCAGGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCCTGCTGGACTGTAACTGACGCTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tLachnospirales\tLachnospiraceae\tNA\n+TACGTATGGTGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGCTGTGCAAGTCTGAAGTGAAAGGCCGGGGCCCAACCCCGGGAGTGCTTTGGAAACTGTGCGGCTAGAGTGTCGGAGAGGCAAGTGGAATTCCCAGTGTAGCGGTGAAATGCGTAGATATTGGGAGGAACACCAGTGGCGAAGGCGTCTTGCTGGACGATGACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tLachnospirales\tLachnospiraceae\tLachnospiraceae_UCG-006\n+TACGTAGGGGGCGAGCGTTGTCCGGAATGACTGGGCGTAAAGGGAGTGTAGGCGGCCTTTTAAGTTATGTGTGAAAGCCCACGGCTCAACTGTGGAATTGCACATAAAACTGGGAGGCTGGAGTGCAGGAGAGGTAAGCGGAATTTCCAGTGTAGCGGTGGAATGCGTAGATATTGGGAAGAACACCGGAGGCGAAGGCGGCTTACTGGACTGTAACTGACGCTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tNA\tNA\tNA\n+TACGTAGGGAGCGAGCGTTATCCGGATTTATTGGGTGTAAAGGGTGCGTAGACGGGGAATTAAGTTAGTTGTGAAATCCCAAGGCTCAACTTTGGAACTGCAACTAAAACTAATTTTCTTGAGTACTGGAGAGGAAAGTGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGACTTTCTGGACAGAAACTGACGTTGAGGCACGAAAGTGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tClostridia_UCG-014\tNA\tNA\n+TACGTAGGTGGCGAGCGTTATCCGGATTTATTGGGCGTAAAGCGTGCGCAGGCGGTTTGTTAAGTCTAAAATCAAAGCCCGAAGCTTAACTTCGGTTCGTTTTAGAAACTGGCAGGCTTGAGTATGGTAGAGGCAAACGGAATTTCTAGTGTAGCGGTAAAATGCGTAGATATTAGAAGGAACACCAGTGGCGAAGGCGGTTTGCTGGGCCATTACTGACGCTCATGCACGAAAGCGTGGGGAGCAAATAGG\tBacteria\tFirmicutes\tBacilli\tRF39\tNA\tNA\n+TACGTAGGAGGCAAGCGTTATCCGGAATGACTGGGCGTAAAGGGTGCGTAGGTGGTTTGGCAAGTTAGTAGCGTAATTCCGGGGCTCAACTTCGGAACTACTACTAAAACTGCTGGGCTTGAGTGCAGGAGGGGCATATGGAATTCCTAGTGTAGCGGTGGAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGATATGCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tClostridia_vadinBB60_group\tNA\tNA\n+TACGTAGGGAGCGAGCGTTATCCGGATTTATTGGGTGTAAAGGGTGCGTAGACGGGAAATTAAGTTAGTTGTGAAATCCCTCGGCTCAACCGAGGAACTGCAACTAAAACTGATATTCTTGAGTACTGGAGAGGAAAGTGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGACTTTCTGGACAGAAACTGACGTTGAGGCACGAAAGTGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tClostridia_UCG-014\tNA\tNA\n+TACGGAGGATGCGAGCGTTATCCGGAATGACTGGGCGTAAAGGGTGCGTAGGTGGTTTGACAAGTTGGTAGCGTAACTCCGGGGCTCAACCTCGGCACTACTACCAAAACTGTTGGACTTGAGTGCAGGAGGGGCAAATGGAATTCCTAGTGTAGCGGTGGAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGATTTGCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\tBacteria\tFirmicutes\tClostridia\tClostridia_vadinBB60_group\tNA\tNA\n+TACGGAGGGGGCGAGCGTTATCCGGATTCATTGGGCGTAAAGCGCGCGTAGGCGGCCTGTTAGGTCGGGGGTCAAATACCGGGGCTCAACCCCGGTCCGCCCCCGATACCGGCAGGCTTGAGTCTGGTAGGGGAAGGCGGAATTCCCAGTGTAGCGGTGGAATGCGCAGATATTGGGAAGAACACCGGCGGCGAAGGCGGCCTTCTGGGCCACGACTGACGCTGAGGCGCGAAAGCTAGGGGAGCGAACAGG\tBacteria\tActinobacteriota\tCoriobacteriia\tCoriobacteriales\tAtopobiaceae\tOlsenella\n+TACGTAGGGGGCGAGCGTTATCCGGATTTATTGGGCGTAAAGGGTGCGTAGGCGGTATGTTAAGTCTAAAATCAAAGCCCGAGGCTTAACCTCGGTTCGTTTTAGAAACTGGCAAACTAGAGTGCAGTAGAGGCAAGTGGAATTTCTAGTGTAGCGGTTAAATGCGTAGATATTAGAAGGAACACCAGTGGCGAAGGCGGCTTGCTGGGCTGTAACTGACGCTGAGGCACGAAAGCGTGGGGAGCAAATAGG\tBacteria\tFirmicutes\tBacilli\tRF39\tNA\tNA\n'

diff -r 49b97737747d -r 78ff575ef835 test-data/dada2-metadata.tsv
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/dada2-metadata.tsv Mon Feb 26 07:55:14 2024 +0000

@@ -0,0 +1,21 @@
+Sample time
+F3D0 early
+F3D1 early
+F3D2 early
+F3D3 early
+F3D5 early
+F3D6 early
+F3D7 early
+F3D8 early
+F3D9 early
+F3D141 late
+F3D142 late
+F3D143 late
+F3D144 late
+F3D145 late
+F3D146 late
+F3D147 late
+F3D148 late
+F3D149 late
+F3D150 late
+Mock mock

diff -r 49b97737747d -r 78ff575ef835 test-data/dada2-removeBimeraDenovo.tab
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/dada2-removeBimeraDenovo.tab Mon Feb 26 07:55:14 2024 +0000

b'@@ -0,0 +1,233 @@\n+\tF3D0\tF3D1\tF3D141\tF3D142\tF3D143\tF3D144\tF3D145\tF3D146\tF3D147\tF3D148\tF3D149\tF3D150\tF3D2\tF3D3\tF3D5\tF3D6\tF3D7\tF3D8\tF3D9\tMock\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGCAGGCGGAAGATCAAGTCAGCGGTAAAATTGAGAGGCTCAACCTCTTCGAGCCGTTGAAACTGGTTTTCTTGAGTGAGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCTCAACTGACGCTCATGCACGAAAGTGTGGGTATCGAACAGG\t579\t405\t444\t289\t228\t421\t645\t325\t1495\t863\t883\t317\t3488\t988\t327\t1014\t648\t272\t511\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGCAGGCGGACTCTCAAGTCAGCGGTCAAATCGCGGGGCTCAACCCCGTTCCGCCGTTGAAACTGGGAGCCTTGAGTGCGCGAGAAGTAGGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCCTACCGGCGCGCAACTGACGCTCATGCACGAAAGCGTGGGTATCGAACAGG\t345\t353\t362\t304\t176\t277\t489\t230\t1215\t729\t779\t229\t1587\t602\t268\t674\t504\t352\t423\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGCTGTTAAGTCAGCGGTCAAATGTCGGGGCTCAACCCCGGCCTGCCGTTGAAACTGGCGGCCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCGACTGACGCTGAGGCACGAAAGCGTGGGTATCGAACAGG\t449\t231\t345\t158\t204\t302\t522\t254\t913\t581\t723\t399\t1175\t465\t284\t588\t438\t349\t482\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGCTTTTAAGTCAGCGGTAAAAATTCGGGGCTCAACCCCGTCCGGCCGTTGAAACTGGGGGCCTTGAGTGGGCGAGAAGAAGGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCCTTCCGGCGCCCTACTGACGCTGAGGCACGAAAGTGCGGGGATCGAACAGG\t430\t69\t502\t164\t231\t357\t583\t388\t1089\t853\t897\t471\t472\t200\t158\t404\t314\t147\t206\t0\n+TACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGGTGGATTGTTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGAAACTGGCAGTCTTGAGTACAGTAGAGGTGGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCTCACTGGACTGCAACTGACACTGATGCTCGAAAGTGTGGGTATCAAACAGG\t154\t140\t189\t180\t130\t104\t307\t179\t453\t443\t417\t169\t338\t402\t151\t476\t470\t582\t596\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGCCTGCCAAGTCAGCGGTAAAATTGCGGGGCTCAACCCCGTACAGCCGTTGAAACTGCCGGGCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAGGCACGAAAGTGCGGGGATCAAACAGG\t470\t41\t331\t181\t244\t353\t476\t275\t1182\t872\t637\t216\t115\t25\t23\t17\t11\t0\t0\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGATGCCAAGTCAGCGGTAAAAAAGCGGTGCTCAACGCCGTCGAGCCGTTGAAACTGGCGTTCTTGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAGGCACGAAAGCGTGGGTATCGAACAGG\t282\t96\t243\t163\t152\t240\t396\t214\t861\t579\t560\t238\t325\t167\t123\t282\t195\t130\t210\t0\n+TACGGAGGATTCAAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGTTCGATAAGTTAGAGGTGAAATCCCGGGGCTCAACTCCGGCACTGCCTCTGATACTGTCGGGCTAGAGTTTAGTTGCGGTAGGCGGAATGTATGGTGTAGCGGTGAAATGCATAGAGATCATACAGAACACCGATTGCGAAGGCAGCTTACCAAACTACGACTGACGTTGAGGCACGAAAGCGTGGGGAGCAAACAGG\t184\t190\t321\t89\t83\t41\t125\t71\t75\t507\t515\t120\t1211\t381\t207\t261\t213\t286\t438\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGATCGTTAAGTCAGTGGTCAAATTGAGGGGCTCAACCCCTTCCCGCCATTGAAACTGGCGATCTTGAGTGGAAGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATGCCGGCTTCCTACTGACGCTGAAGCACGAAAGCGTGGGGATCGAACAGG\t45\t69\t167\t89\t109\t158\t202\t113\t769\t409\t426\t241\t434\t307\t178\t205\t176\t113\t146\t0\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGGATGTCAAGTCAGCGGTAAAATTGTGGAGCTCAACTCCATCGAGCCGTTGAAACTGACGTTCTTGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCATACCGGCGCCCTACTGACGCTGAAGCACGAAAGCGTGGGTATCGAACAGG\t158\t106\t130\t78\t67\t155\t229\t88\t269\t198\t288\t149\t609\t298\t207\t242\t276\t197\t225\t0\n+TACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGTGCAGGCGGTTCAATAAGTCTGATGTGAAAGCCTTCGGCTCAACCGGAGAATTGCATCAGAAACTGTTGAACTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGG\t17\t102\t168\t42\t78\t269\t317\t178\t448\t411\t478\t61\t55\t171\t61\t45\t16\t19\t27\t103\n+TACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGCCTGCCAAGTCAGCGGTAAAATTGCGGGGCTCAACCCCGTACAGCCGTTGAAACTGCCGGGCTCGAGTGGGCGAGAAGTATGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACCCCGATTGCGAAGGCAGCATACCGGCGCCCGACTGACGCTG'..b'GAAGGGGAGAGTGGAATTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAGGAACACCGGTGGCGAAAGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCGTGGGTAGCGAACAGG\t0\t6\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGTGGCAAGCGTTATCCGGATTTATTGGGTGTAAAGGGCGTGTAGGCGGGAAAGCAAGTCAGATGTGAAAACTCAGGGCTCAACCCTGAGCCTGCATTTGAAACTGTTTTTCTTGAGTGCTGGAGAGGCAATCGGAATTCCGTGTGTAGCGGTGAAATGCGTAGATATACGGAGGAACACCAGTGGCGAAGGCGGATTGCTGGACAGTAACTGACGCTGAGGCGCGAAAGCGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t6\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGTGCGTAGGTGGCAGGGCAAGTCAGATGTGAAAGCCCGGGGCTCAACCCCGGTACTGCATTTGAAACTGTCCAGCTGGAGTGCAGGAGAGGTAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t5\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+GACAGAGGATGCAAGCGTTATCCGGAATGATTGGGCGTAAAGCGTCTGTAGGTGGCTTTTTAAGTCCGCCGTCAAATCCCAGGGCTCAACCCTGGACAGGCGGTGGAAACTACCAAGCTGGAGTACGGTAGGGGCAGAGGGAATTTCCGGTGGAGCGGTGAAATGCGTAGAGATCGGAAAGAACACCAACGGCGAAAGCACTCTGCTGGGCCGACACTGACACTGAGAGACGAAAGCTAGGGGAGCGAATGGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t5\t0\t0\t0\t0\t0\t0\n+TACGTATGGAGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGCAGGCGGCATGGCAAGTCAGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTTGAAACTGTCAGGCTAGAGTGCAGGAGAGGCAGGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCCTGCTGGACTGTAACTGACGCTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t5\t0\n+TACGTATGGTGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGCTGTGCAAGTCTGAAGTGAAAGGCCGGGGCCCAACCCCGGGAGTGCTTTGGAAACTGTGCGGCTAGAGTGTCGGAGAGGCAAGTGGAATTCCCAGTGTAGCGGTGAAATGCGTAGATATTGGGAGGAACACCAGTGGCGAAGGCGTCTTGCTGGACGATGACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\t4\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGGGGCGAGCGTTGTCCGGAATGACTGGGCGTAAAGGGAGTGTAGGCGGCCTTTTAAGTTATGTGTGAAAGCCCACGGCTCAACTGTGGAATTGCACATAAAACTGGGAGGCTGGAGTGCAGGAGAGGTAAGCGGAATTTCCAGTGTAGCGGTGGAATGCGTAGATATTGGGAAGAACACCGGAGGCGAAGGCGGCTTACTGGACTGTAACTGACGCTGAGGCTCGAAAGCGTGGGGAGCAAACAGG\t4\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGGAGCGAGCGTTATCCGGATTTATTGGGTGTAAAGGGTGCGTAGACGGGGAATTAAGTTAGTTGTGAAATCCCAAGGCTCAACTTTGGAACTGCAACTAAAACTAATTTTCTTGAGTACTGGAGAGGAAAGTGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGACTTTCTGGACAGAAACTGACGTTGAGGCACGAAAGTGTGGGGAGCAAACAGG\t0\t0\t4\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGTGGCGAGCGTTATCCGGATTTATTGGGCGTAAAGCGTGCGCAGGCGGTTTGTTAAGTCTAAAATCAAAGCCCGAAGCTTAACTTCGGTTCGTTTTAGAAACTGGCAGGCTTGAGTATGGTAGAGGCAAACGGAATTTCTAGTGTAGCGGTAAAATGCGTAGATATTAGAAGGAACACCAGTGGCGAAGGCGGTTTGCTGGGCCATTACTGACGCTCATGCACGAAAGCGTGGGGAGCAAATAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t4\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGAGGCAAGCGTTATCCGGAATGACTGGGCGTAAAGGGTGCGTAGGTGGTTTGGCAAGTTAGTAGCGTAATTCCGGGGCTCAACTTCGGAACTACTACTAAAACTGCTGGGCTTGAGTGCAGGAGGGGCATATGGAATTCCTAGTGTAGCGGTGGAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGATATGCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t4\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGGAGCGAGCGTTATCCGGATTTATTGGGTGTAAAGGGTGCGTAGACGGGAAATTAAGTTAGTTGTGAAATCCCTCGGCTCAACCGAGGAACTGCAACTAAAACTGATATTCTTGAGTACTGGAGAGGAAAGTGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGACTTTCTGGACAGAAACTGACGTTGAGGCACGAAAGTGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t4\t0\n+TACGGAGGATGCGAGCGTTATCCGGAATGACTGGGCGTAAAGGGTGCGTAGGTGGTTTGACAAGTTGGTAGCGTAACTCCGGGGCTCAACCTCGGCACTACTACCAAAACTGTTGGACTTGAGTGCAGGAGGGGCAAATGGAATTCCTAGTGTAGCGGTGGAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGATTTGCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGG\t0\t0\t0\t0\t0\t3\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGGAGGGGGCGAGCGTTATCCGGATTCATTGGGCGTAAAGCGCGCGTAGGCGGCCTGTTAGGTCGGGGGTCAAATACCGGGGCTCAACCCCGGTCCGCCCCCGATACCGGCAGGCTTGAGTCTGGTAGGGGAAGGCGGAATTCCCAGTGTAGCGGTGGAATGCGCAGATATTGGGAAGAACACCGGCGGCGAAGGCGGCCTTCTGGGCCACGACTGACGCTGAGGCGCGAAAGCTAGGGGAGCGAACAGG\t0\t0\t0\t0\t0\t0\t0\t0\t3\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\n+TACGTAGGGGGCGAGCGTTATCCGGATTTATTGGGCGTAAAGGGTGCGTAGGCGGTATGTTAAGTCTAAAATCAAAGCCCGAGGCTTAACCTCGGTTCGTTTTAGAAACTGGCAAACTAGAGTGCAGTAGAGGCAAGTGGAATTTCTAGTGTAGCGGTTAAATGCGTAGATATTAGAAGGAACACCAGTGGCGAAGGCGGCTTGCTGGGCTGTAACTGACGCTGAGGCACGAAAGCGTGGGGAGCAAATAGG\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t0\t2\t0\t0\t0\t0\t0\t0\n'

diff -r 49b97737747d -r 78ff575ef835 test-data/output.phyloseq

Binary file test-data/output.phyloseq has changed