changeset 2:1ae93cdb2383 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit 3418f23b9768f5aafb86488f5ec1cb97530d4fb3
author iuc
date Tue, 20 Mar 2018 22:17:34 -0400
parents e664787de3ab
children 297016f93f77
files classify.otu.xml macros.xml test-data/Fasting_Example1.scrap.sff test-data/amazon.an.0.03.pearson.otu.corr test-data/amazon.otus.accnos test-data/esophagus.fn.shared test-data/samplebiom.biom1 test-data/stool_small.count_table test-data/stool_small.denovo.vsearch.accnos test-data/stool_small.names test-data/stool_small.unique.fasta test-data/stool_small.vsearch.chimeras
diffstat 12 files changed, 13015 insertions(+), 95 deletions(-) [+]
line wrap: on
line diff
--- a/classify.otu.xml	Tue Sep 05 16:51:43 2017 -0400
+++ b/classify.otu.xml	Tue Mar 20 22:17:34 2018 -0400
@@ -7,93 +7,78 @@
     <expand macro="stdio"/>
     <expand macro="version_command"/>
     <command><![CDATA[
-        @SHELL_OPTIONS@
+@SHELL_OPTIONS@
 
-        ## create symlinks to input datasets
-        ln -s "$otu" otu.dat &&
-        ln -s "$tax.taxonomy" tax.taxonomy.dat &&
-        ln -s "$name" name.dat &&
-        ln -s "$count" count.dat &&
-        ln -s "$group" group.dat &&
-        #if $reftax.source2:
-            ln -s "$reftax.taxonomy" myreftax.taxonomy &&
-            ln -s "$sum" myreftax.tree.sum &&
-        #end if
+## create symlinks to input datasets
+ln -s '$otu' otu.dat &&
+ln -s '$tax.taxonomy' tax.taxonomy.dat &&
+ln -s '$name' name.dat &&
+ln -s '$count' count.dat &&
+ln -s '$group' group.dat &&
 
-        echo 'classify.otu(
-            list=otu.dat,
-            taxonomy=tax.taxonomy.dat,
-            #if $name:
-                name=name.dat,
-            #end if
-            #if $count:
-                count=count.dat,
-            #end if
-            #if $reftax.source2:
-                reftaxonomy=myreftax.taxonomy,
-            #end if
-            #if $label:
-                label=${ str($label).replace(",","-") },
-            #end if
-            #if $group:
-                group=group.dat,
-            #end if
-            basis=$basis,
-            probs=$probs,
-            persample=$persample,
-            cutoff=$cutoff
-        )'
-        | sed 's/ //g'  ## mothur trips over whitespace
-        | mothur
-        | tee mothur.out.log
+echo 'classify.otu(
+    list=otu.dat,
+    taxonomy=tax.taxonomy.dat,
+    #if $name:
+        name=name.dat,
+    #end if
+    #if $count:
+        count=count.dat,
+    #end if
+    #if $label:
+        label=${ str($label).replace(",","-") },
+    #end if
+    #if $group:
+        group=group.dat,
+    #end if
+    basis=$basis,
+    probs=$probs,
+    persample=$persample,
+    cutoff=$cutoff,
+    relabund=$relabund,
+    output=$output,
+    printlevel=$printlevel
+)'
+| sed 's/ //g'  ## mothur trips over whitespace
+| mothur
+| tee mothur.out.log
     ]]></command>
     <inputs>
-        <param name="otu" type="data" format="mothur.list" label="list - OTU List "/>
-        <param name="name" type="data" format="mothur.names" optional="true" label="name - taxonomy sequence names"/>
-        <param name="count" type="data" format="mothur.count_table" optional="true" label="count - used to represent the number of duplicate sequences for a given representative sequence"/>
+        <param argument="list" name="otu" type="data" format="mothur.list" label="list - OTU List "/>
+        <param argument="name" type="data" format="mothur.names" optional="true" label="name - taxonomy sequence names"/>
+        <param argument="count" type="data" format="mothur.count_table" optional="true" label="count - used to represent the number of duplicate sequences for a given representative sequence"/>
         <conditional name="tax">
             <param name="source" type="select" label="Select Taxonomy from" help="">
                 <option value="hist">History</option>
                 <option value="ref">Cached Reference</option>
             </param>
             <when value="ref">
-                <param name="taxonomy" type="select" format="mothur.seq.taxonomy" label="taxonomy - Taxonomy Reference">
+                <param argument="taxonomy" type="select" format="mothur.seq.taxonomy" label="taxonomy - Taxonomy Reference">
                     <options from_data_table="mothur_taxonomy"/>
                 </param>
             </when>
             <when value="hist">
-                <param name="taxonomy" type="data" format="mothur.seq.taxonomy" label="taxonomy - Taxonomy Reference"/>
+                <param argument="taxonomy" type="data" format="mothur.seq.taxonomy" label="taxonomy - Taxonomy Reference"/>
             </when>
         </conditional>
-        <conditional name="reftax">
-            <param name="source2" type="select" label="Select Reference Taxonomy used in Classify.seqs from" help="Including the reference taxonomy file used when you classified your sequences keep the rankIDs in the summary file static.">
-                <option value="">Selection is Optional</option>
-                <option value="hist">History</option>
-                <option value="ref">Cached Reference</option>
-            </param>
-            <when value=""/>
-            <when value="ref">
-                <param name="taxonomy" type="select" format="mothur.seq.taxonomy" label="reftaxonomy - Taxonomy Reference used when sequences were classified">
-                    <options from_data_table="mothur_taxonomy"/>
-                </param>
-                <param name="sum" type="data" format="tabular" label="tree.sum - summary file produced when sequences were classified" help="run classify.seqs to get this file"/>
-            </when>
-            <when value="hist">
-                <param name="taxonomy" type="data" format="mothur.seq.taxonomy" label="reftaxonomy - Taxonomy Reference used when sequences were classified"/>
-                <param name="sum" type="data" format="tabular" label="tree.sum - summary file produced when sequences were classified" help="run classify.seqs to get this file"/>
-            </when>
-        </conditional>
-        <param name="label" type="select" label="label - OTU Labels" multiple="true">
+        <param argument="label" type="select" label="label - OTU Labels" multiple="true">
             <expand macro="labeloptions"/>
         </param>
-        <param name="cutoff" type="integer" value="60" min="0" max="100" label="cutoff - Confindence percentage cutoff between 1 and 100"/>
-        <param name="probs" type="boolean" falsevalue="false" truevalue="true" checked="true" label="probs - Show probabilities"/>
-        <param name="basis" type="select" label="basis - Summary file gives numbers of" help="">
+        <param argument="cutoff" type="integer" value="60" min="0" max="100" label="cutoff - Confindence percentage cutoff between 1 and 100"/>
+        <param argument="probs" type="boolean" falsevalue="false" truevalue="true" checked="true" label="probs - Show probabilities"/>
+        <param argument="basis" type="select" label="basis - Summary file gives numbers of" help="">
             <option value="otu">OTU</option>
             <option value="sequence">sequence</option>
         </param>
-        <param name="group" type="data" format="mothur.groups" optional="true" label="group - Groups for summary file"/>
-        <param name="persample" type="boolean" falsevalue="false" truevalue="true" checked="false" label="persample - allows you to find a consensus taxonomy for each group. default=f"/>
+        <param argument="group" type="data" format="mothur.groups" optional="true" label="group - Groups for summary file"/>
+        <param argument="persample" type="boolean" falsevalue="false" truevalue="true" checked="false"
+            label="persample - allows you to find a consensus taxonomy for each group"
+            help="default false"/>
+        <param argument="relabund" type="boolean" checked="false" truevalue="T" falsevalue="F" label="Relative abundance values?"
+            help="use relative abundances rather than raw abundances for the tax.summary file"/>
+        <expand macro="param-output"/>
+        <expand macro="param-printlevel"/>
+        <expand macro="param-savelog"/>
     </inputs>
     <outputs>
         <expand macro="logfile-output"/>
@@ -110,28 +95,48 @@
             <param name="source" value="hist"/>
             <param name="taxonomy" value="abrecovery.pds.wang.taxonomy" ftype="mothur.seq.taxonomy"/>
             <output_collection name="taxonomies" count="36">
-                <element name="0.18" md5="69a80ebaeb368d4944aa95ce120c6643" ftype="mothur.cons.taxonomy"/>
+                <element name="0.18" ftype="mothur.cons.taxonomy">
+                    <assert_contents>
+                        <expand macro="test-taxonomy-format"/>
+                        <has_text text="Otu01"/>
+                    </assert_contents>
+                </element>
             </output_collection>
             <output_collection name="taxsummaries" count="36">
-                <element name="0.18" md5="bd5613b544a70c5c19f21a3d6602d926" ftype="mothur.tax.summary"/>
+                <element name="0.18" ftype="mothur.tax.summary">
+                    <assert_contents>
+                        <expand macro="test-taxsummary-format"/>
+                        <has_text text="Root"/>
+                    </assert_contents>
+                </element>
             </output_collection>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
         </test>
-        <test><!-- test with reftaxonomy and names file and label select -->
+        <test><!-- test with names file and label select -->
             <param name="otu" value="amazon.an.list" ftype="mothur.list"/>
             <param name="name" value="amazon1.names" ftype="mothur.names"/>
             <param name="source" value="hist"/>
             <param name="taxonomy" value="abrecovery.pds.wang.taxonomy" ftype="mothur.seq.taxonomy"/>
-            <param name="source2" value="hist"/>
-            <param name="reftaxonomy" value="abrecovery.pds.wang.taxonomy" ftype="mothur.seq.taxonomy"/>
             <param name="sum" value="abrecovery.pds.wang.tree.sum"/>
             <param name="label" value="unique,0.05,0.18"/>
             <output_collection name="taxonomies" count="3">
-                <element name="0.18" md5="69a80ebaeb368d4944aa95ce120c6643" ftype="mothur.cons.taxonomy"/>
+                <element name="0.18" ftype="mothur.cons.taxonomy">
+                    <assert_contents>
+                        <expand macro="test-taxonomy-format"/>
+                        <has_text text="Otu01"/>
+                    </assert_contents>
+                </element>
             </output_collection>
             <output_collection name="taxsummaries" count="3">
-                <element name="0.18" md5="115769aa33dcfd121dd945a40ea11dcb" ftype="mothur.tax.summary"/>
+                <element name="0.18" ftype="mothur.tax.summary">
+                    <assert_contents>
+                        <expand macro="test-taxsummary-format"/>
+                        <has_text text="Root"/>
+                    </assert_contents>
+                </element>
             </output_collection>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
         </test>
         <test><!-- test with count table -->
@@ -141,11 +146,22 @@
             <param name="label" value="unique,0.05,0.18"/>
             <param name="taxonomy" value="abrecovery.pds.wang.taxonomy" ftype="mothur.seq.taxonomy"/>
             <output_collection name="taxonomies" count="3">
-                <element name="0.18" md5="69a80ebaeb368d4944aa95ce120c6643" ftype="mothur.cons.taxonomy"/>
+                <element name="0.18" ftype="mothur.cons.taxonomy">
+                    <assert_contents>
+                        <expand macro="test-taxonomy-format"/>
+                        <has_text text="Otu01"/>
+                    </assert_contents>
+                </element>
             </output_collection>
             <output_collection name="taxsummaries" count="3">
-                <element name="0.18" md5="bd5613b544a70c5c19f21a3d6602d926" ftype="mothur.tax.summary"/>
+                <element name="0.18" ftype="mothur.tax.summary">
+                    <assert_contents>
+                        <expand macro="test-taxsummary-format"/>
+                        <has_text text="Root"/>
+                    </assert_contents>
+                </element>
             </output_collection>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
         </test>
         <test><!-- test with group file -->
@@ -155,16 +171,26 @@
             <param name="label" value="unique,0.05,0.18"/>
             <param name="taxonomy" value="abrecovery.pds.wang.taxonomy" ftype="mothur.seq.taxonomy"/>
             <output_collection name="taxonomies" count="3">
-                <element name="0.18" md5="69a80ebaeb368d4944aa95ce120c6643" ftype="mothur.cons.taxonomy"/>
+                <element name="0.18" ftype="mothur.cons.taxonomy">
+                    <assert_contents>
+                        <expand macro="test-taxonomy-format"/>
+                        <has_text text="Otu01"/>
+                    </assert_contents>
+                </element>
             </output_collection>
             <output_collection name="taxsummaries" count="3">
-                <element name="0.18" md5="fe038e7670fbc5d68c1f5bb79d8ef4ac" ftype="mothur.tax.summary"/>
+                <element name="0.18" ftype="mothur.tax.summary">
+                    <assert_contents>
+                        <expand macro="test-taxsummary-format"/>
+                        <has_text text="Root"/>
+                    </assert_contents>
+                </element>
             </output_collection>
+            <param name="savelog" value="true"/>
             <expand macro="logfile-test"/>
         </test>
     </tests>
-    <help>
-<![CDATA[
+    <help><![CDATA[
 
 @MOTHUR_OVERVIEW@
 
@@ -177,7 +203,7 @@
 .. _classify.otu: https://www.mothur.org/wiki/Classify.otu
 
 v1.21.0: Updated to use Mothur 1.33. Added count parameter (1.28.0) and persample parameter (1.29.0)
-]]>
-    </help>
+
+    ]]></help>
     <expand macro="citations"/>
 </tool>
--- a/macros.xml	Tue Sep 05 16:51:43 2017 -0400
+++ b/macros.xml	Tue Mar 20 22:17:34 2018 -0400
@@ -1,11 +1,13 @@
 <macros>
+    <token name="@WRAPPER_VERSION@">1.39.5</token>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="1.36.1">mothur</requirement>
+            <requirement type="package" version="@WRAPPER_VERSION@">mothur</requirement>
+            <yield/>
         </requirements>
     </xml>
     <xml name="version_command">
-        <version_command>mothur "#help()" | sed '7q;d' | cut -d" " -f2 </version_command>
+        <version_command><![CDATA[ mothur "#help()" | sed '7q;d' | cut -d" " -f2 ]]></version_command>
     </xml>
     <xml name="stdio">
         <stdio>
@@ -13,20 +15,10 @@
             <exit_code range="1:" level="fatal"/>
         </stdio>
     </xml>
-    <token name="@WRAPPER_VERSION@">1.36.1</token>
     <token name="@SHELL_OPTIONS@">set -o pipefail;</token>
-    <token name="@MOTHUR_OVERVIEW@">
-<![CDATA[
-
-**Mothur Overview**
 
-Mothur is a comprehensive suite of tools for microbial ecology community. It is initiated by Dr. Patrick Schloss and his software development team
-in the Department of Microbiology and Immunology at The University of Michigan. For more information, see Mothur-Wiki_.
 
-.. _Mothur-Wiki: https://www.mothur.org/wiki/Main_Page
-
-]]>
-    </token>
+    <!-- Input parameters -->
     <xml name="labeloptions">
         <options>
             <filter type="data_meta" ref="otu" key="labels"/>
@@ -78,9 +70,70 @@
         <option value="whittaker">whittaker - Community Membership Similarity the Whittaker similarity coefficient</option>
         <yield/>
     </xml>
+
+    <!-- CLUSTERING -->
+    <xml name="param-clustermethods">
+        <param argument="method" type="select" label="Clustering Method">
+            <option value="opti" selected="true">Opticlust method</option>
+            <option value="furthest">Furthest neighbor</option>
+            <option value="nearest">Nearest neighbor</option>
+            <option value="average">Average neighbor</option>
+            <yield/>
+        </param>
+    </xml>
+    <xml name="option-vsearch-clustermethods">
+        <option value="agc">Abundance-based greedy clustering (agc)(VSEARCH)</option>
+        <option value="dgc">Distance-based greedy clustering (dgc)(VSEARCH)</option>
+    </xml>
+    <xml name="params-opticlust">
+        <param argument="metric" type="select" label="metric - select the metric in the opticluster method"
+            help="Options are Matthews correlation coefficient (mcc), sensitivity (sens), specificity (spec), true positives + true negatives (tptn),
+            false positives + false negatives (fpfn), true positives (tp), true negative (tn), false positive (fp), false negative (fn), f1score (f1score),
+            accuracy (accuracy), positive predictive value (ppv), negative predictive value (npv), false discovery rate (fdr). Default=mcc.">
+            <option value="mcc" selected="true">Matthews correlation coefficient (mcc)</option>
+            <option value="sens">Sensitivity</option>
+            <option value="spec">specificity</option>
+            <option value="tptn">true positives + true negatives</option>
+            <option value="fpfn">false positives + false negatives</option>
+            <option value="tp">true positives</option>
+            <option value="tn">true negative</option>
+            <option value="fp">false positive</option>
+            <option value="fn">false negative</option>
+            <option value="f1score">f1score</option>
+            <option value="accuracy">accuracy</option>
+            <option value="ppv">positive predictive value</option>
+            <option value="npv">negative predictive value</option>
+            <option value="fdr">false discovery rate</option>
+        </param>
+        <param argument="initialize" type="select" label="Initial randomization"
+            help="singleton: each sequence is randomly assigned to its own OTU; oneotu: all sequences are assigned to one otu">
+            <option value="singleton" selected="true">Singleton</option>
+            <option value="oneotu">Oneotu</option>
+        </param>
+        <param argument="delta" type="float" value="0.0001" label="set the stable value for the metric in the opticluster method"
+            help="The delta parameter allows to set the stable value for the metric in the opticluster method. To reach a full convergence, set delta=0."/>
+        <param argument="iters" type="integer" value="100" label="Maximum number of iterations"/>
+    </xml>
+    <xml name="param-output">
+        <param argument="output" type="select" label="Tax summary output type"
+            help="The detail format outputs the totals at each level, where as the simple format outputs the highest level">
+            <option value="simple" selected="true">simple</option>
+            <option value="detail">detail</option>
+        </param>
+    </xml>
+    <xml name="param-printlevel">
+        <param argument="printlevel" type="integer" value="-1" min="-1" label="Print level" help="specify taxlevel of your *tax.summary file to print to. Options are 1 to the maz level in the file. The default is -1, meaning max level" />
+    </xml>
+    <xml name="param-savelog">
+        <param name="savelog" type="boolean" checked="false" label="Output logfile?"/>
+    </xml>
     <xml name="logfile-output">
-        <data name="logfile" format="txt" from_work_dir="mothur.out.log" label="${tool.name} on ${on_string}: logfile"/>
+        <data name="logfile" format="txt" from_work_dir="mothur.out.log" label="${tool.name} on ${on_string}: logfile">
+            <filter>savelog</filter>
+        </data>
     </xml>
+
+    <!-- Output file tests -->
     <xml name="logfile-test">
         <output name="logfile" ftype="txt">
             <assert_contents>
@@ -89,6 +142,101 @@
             </assert_contents>
         </output>
     </xml>
+
+    <xml name="test-accnos-format">
+        <!-- one or two columns -->
+        <has_line_matching expression="^[\w\d\-]+(\t[^\t]+)?$"/>
+    </xml>
+    <xml name="test-align-format">
+        <has_line_matching expression="^>.+$"/>
+        <has_line_matching expression="^[ACTG\-\.]+$"/>
+    </xml>
+    <xml name="test-aligncheck-format">
+        <has_n_columns n="9"/>
+        <has_line_matching expression="^name\tpound\tdash\tplus\tequal\tloop\ttilde\ttotal\tnumseqs$"/>
+    </xml>
+    <xml name="test-alignreport-format">
+        <has_line_matching expression="^QueryName\tQueryLength\tTemplateName\tTemplateLength\tSearchMethod\tSearchScore\tAlignmentMethod\tQueryStart\tQueryEnd\tTemplateStart\tTemplateEnd\tPairwiseAlignmentLength\tGapsInQuery\tGapsInTemplate\tLongestInsert\tSimBtwnQuery&amp;Template$"/>
+    </xml>
+    <xml name="test-axes-format">
+        <has_line_matching expression="^group(\taxis\d+)+$"/>
+    </xml>
+    <xml name="test-chimera-format">
+        <has_line_matching expression="Score\tQuery\tParentA\tParentB\tIdQM\tIdQA\tIdQB\tIdAB\tIdQT\tLY\tLN\tLA\tRY\tRN\tRA\tDiv\tYN"/>
+    </xml>
+    <xml name="test-column-format">
+        <has_n_columns n="3"/>
+        <has_line_matching expression="^[\w\d\-]+\t[\w\d\-]+\t[\d\.]+$"/>
+    </xml>
+    <xml name="test-contigsreport-format">
+        <has_n_columns n="7"/>
+        <has_line_matching expression="^Name\tLength\tOverlap_Length\tOverlap_Start\tOverlap_End\tMisMatches\tNum_Ns$"/>
+    </xml>
+    <xml name="test-count-format">
+        <has_line_matching expression="^Representative_Sequence\ttotal(\t\w+)*$"/>
+        <has_line_matching expression="^\w+(\t\d+)+(\s)*$"/>
+    </xml>
+    <xml name="test-dist-format">
+        <has_line_matching expression="^[ \t]*\d+$"/>
+        <has_line_matching expression="^[\w\d\-]+(\t[\d\.]+)+\s?$"/>
+    </xml>
+    <xml name="test-fasta-format">
+        <has_line_matching expression="^>.+$"/>
+        <has_line_matching expression="^[ACTGN-]+$"/>
+    </xml>
+    <xml name="test-fastq-format">
+        <has_line_matching expression="^@.+$"/>
+        <has_line_matching expression="^[ACTGN]+$"/>
+        <has_line_matching expression="^\+$"/>
+    </xml>
+    <xml name="test-group-format">
+        <has_line_matching expression="^Representative_Sequence\ttotal(\t[\w\d\-]+)+$"/>
+        <has_line_matching expression="^[\w\d\-]+(\t\d+)+$"/>
+    </xml>
+    <xml name="test-list-format">
+        <has_line_matching expression="^label\tnumOtus(\tOtu\d+)+$"/>
+        <has_line_matching expression="^(unique|0\.\d+)\t\d+(\t[\w\d\-,]+)+$"/>
+    </xml>
+    <xml name="test-names-format">
+        <has_line_matching expression="^[a-zA-Z0-9]+\t[a-zA-Z0-9]+$"/>
+    </xml>
+    <xml name="test-qfile-format">
+        <has_line_matching expression="^(\d+ )+$"/>
+        <has_line_matching expression="^>.+$"/>
+    </xml>
+    <xml name="test-rabund-format">
+        <has_line_matching expression="^(unique|0\.\d+)(\t\d+\.?\d*)+$"/>
+    </xml>
+    <xml name="test-sabund-format">
+        <has_line_matching expression="^(unique|0\.\d+)(\t\d+)+$"/>
+    </xml>
+    <xml name="test-sensspec-format">
+        <has_n_columns n="14"/>
+        <has_line_matching expression="^label\tcutoff\ttp\ttn\tfp\tfn\tsensitivity\tspecificity\tppv\tnpv\tfdr\taccuracy\t\w+\tf1score$"/>
+    </xml>
+    <xml name="test-shared-format">
+        <has_line_matching expression="^label\tGroup\tnumOtus(\t(Otu|rareOTUs|.*OTU.*)\d+)+$"/>
+    </xml>
+    <xml name="test-taxonomy-format">
+        <has_n_columns n="3"/>
+        <has_line_matching expression="^OTU\tSize\tTaxonomy$"/>
+    </xml>
+    <xml name="test-taxsummary-format">
+        <has_line_matching expression="^((taxlevel\trankID\ttaxon\tdaughterlevels\ttotal(\t[\w\d\-]+)*)|(taxonomy\ttotal(\t[\w\d]+)*))$"/>
+    </xml>
+    <!-- backmatter -->
+    <token name="@MOTHUR_OVERVIEW@">
+<![CDATA[
+
+**Mothur Overview**
+
+Mothur is a comprehensive suite of tools for microbial ecology community. It is initiated by Dr. Patrick Schloss and his software development team
+in the Department of Microbiology and Immunology at The University of Michigan. For more information, see Mothur-Wiki_.
+
+.. _Mothur-Wiki: https://www.mothur.org/wiki/Main_Page
+
+]]>
+    </token>
     <xml name="citations">
         <citations>
             <citation type="doi">10.1128/AEM.01541-09</citation>
Binary file test-data/Fasting_Example1.scrap.sff has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/amazon.an.0.03.pearson.otu.corr	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,3829 @@
+OTUA	OTUB	pearsonCoef	Significance
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+Otu31	Otu10	1.000000	0.000000
+Otu31	Otu11	1.000000	0.000000
+Otu31	Otu12	1.000000	0.000000
+Otu31	Otu13	1.000000	0.000000
+Otu31	Otu14	1.000000	0.000000
+Otu31	Otu15	1.000000	0.000000
+Otu31	Otu16	1.000000	0.000000
+Otu31	Otu17	1.000000	0.000000
+Otu31	Otu18	1.000000	0.000000
+Otu31	Otu19	1.000000	0.000000
+Otu31	Otu20	1.000000	0.000000
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+Otu31	Otu22	1.000000	0.000000
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+Otu31	Otu24	-1.000000	0.000000
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+Otu31	Otu26	1.000000	0.000000
+Otu31	Otu27	1.000000	0.000000
+Otu31	Otu28	1.000000	0.000000
+Otu31	Otu29	1.000000	0.000000
+Otu31	Otu30	1.000000	0.000000
+Otu32	Otu01	1.000000	0.000000
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+Otu32	Otu03	1.000000	0.000000
+Otu32	Otu04	-1.000000	0.000000
+Otu32	Otu05	-nan	0.000000
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+Otu32	Otu07	1.000000	0.000000
+Otu32	Otu08	1.000000	0.000000
+Otu32	Otu09	1.000000	0.000000
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+Otu32	Otu16	1.000000	0.000000
+Otu32	Otu17	1.000000	0.000000
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+Otu32	Otu24	-1.000000	0.000000
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+Otu33	Otu01	1.000000	0.000000
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+Otu33	Otu04	-1.000000	0.000000
+Otu33	Otu05	-nan	0.000000
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+Otu35	Otu04	-1.000000	0.000000
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+Otu85	Otu35	-1.000000	0.000000
+Otu85	Otu36	-1.000000	0.000000
+Otu85	Otu37	-1.000000	0.000000
+Otu85	Otu38	-1.000000	0.000000
+Otu85	Otu39	-1.000000	0.000000
+Otu85	Otu40	-1.000000	0.000000
+Otu85	Otu41	-1.000000	0.000000
+Otu85	Otu42	-1.000000	0.000000
+Otu85	Otu43	-1.000000	0.000000
+Otu85	Otu44	-1.000000	0.000000
+Otu85	Otu45	-1.000000	0.000000
+Otu85	Otu46	-1.000000	0.000000
+Otu85	Otu47	1.000000	0.000000
+Otu85	Otu48	1.000000	0.000000
+Otu85	Otu49	1.000000	0.000000
+Otu85	Otu50	1.000000	0.000000
+Otu85	Otu51	1.000000	0.000000
+Otu85	Otu52	1.000000	0.000000
+Otu85	Otu53	1.000000	0.000000
+Otu85	Otu54	1.000000	0.000000
+Otu85	Otu55	1.000000	0.000000
+Otu85	Otu56	1.000000	0.000000
+Otu85	Otu57	1.000000	0.000000
+Otu85	Otu58	1.000000	0.000000
+Otu85	Otu59	1.000000	0.000000
+Otu85	Otu60	1.000000	0.000000
+Otu85	Otu61	1.000000	0.000000
+Otu85	Otu62	1.000000	0.000000
+Otu85	Otu63	1.000000	0.000000
+Otu85	Otu64	1.000000	0.000000
+Otu85	Otu65	1.000000	0.000000
+Otu85	Otu66	1.000000	0.000000
+Otu85	Otu67	1.000000	0.000000
+Otu85	Otu68	1.000000	0.000000
+Otu85	Otu69	1.000000	0.000000
+Otu85	Otu70	1.000000	0.000000
+Otu85	Otu71	1.000000	0.000000
+Otu85	Otu72	1.000000	0.000000
+Otu85	Otu73	1.000000	0.000000
+Otu85	Otu74	1.000000	0.000000
+Otu85	Otu75	1.000000	0.000000
+Otu85	Otu76	1.000000	0.000000
+Otu85	Otu77	1.000000	0.000000
+Otu85	Otu78	1.000000	0.000000
+Otu85	Otu79	1.000000	0.000000
+Otu85	Otu80	1.000000	0.000000
+Otu85	Otu81	1.000000	0.000000
+Otu85	Otu82	1.000000	0.000000
+Otu85	Otu83	1.000000	0.000000
+Otu85	Otu84	1.000000	0.000000
+Otu86	Otu01	-1.000000	0.000000
+Otu86	Otu02	1.000000	0.000000
+Otu86	Otu03	-1.000000	0.000000
+Otu86	Otu04	1.000000	0.000000
+Otu86	Otu05	-nan	0.000000
+Otu86	Otu06	-1.000000	0.000000
+Otu86	Otu07	-1.000000	0.000000
+Otu86	Otu08	-1.000000	0.000000
+Otu86	Otu09	-1.000000	0.000000
+Otu86	Otu10	-1.000000	0.000000
+Otu86	Otu11	-1.000000	0.000000
+Otu86	Otu12	-1.000000	0.000000
+Otu86	Otu13	-1.000000	0.000000
+Otu86	Otu14	-1.000000	0.000000
+Otu86	Otu15	-1.000000	0.000000
+Otu86	Otu16	-1.000000	0.000000
+Otu86	Otu17	-1.000000	0.000000
+Otu86	Otu18	-1.000000	0.000000
+Otu86	Otu19	-1.000000	0.000000
+Otu86	Otu20	-1.000000	0.000000
+Otu86	Otu21	-1.000000	0.000000
+Otu86	Otu22	-1.000000	0.000000
+Otu86	Otu23	-1.000000	0.000000
+Otu86	Otu24	1.000000	0.000000
+Otu86	Otu25	-1.000000	0.000000
+Otu86	Otu26	-1.000000	0.000000
+Otu86	Otu27	-1.000000	0.000000
+Otu86	Otu28	-1.000000	0.000000
+Otu86	Otu29	-1.000000	0.000000
+Otu86	Otu30	-1.000000	0.000000
+Otu86	Otu31	-1.000000	0.000000
+Otu86	Otu32	-1.000000	0.000000
+Otu86	Otu33	-1.000000	0.000000
+Otu86	Otu34	-1.000000	0.000000
+Otu86	Otu35	-1.000000	0.000000
+Otu86	Otu36	-1.000000	0.000000
+Otu86	Otu37	-1.000000	0.000000
+Otu86	Otu38	-1.000000	0.000000
+Otu86	Otu39	-1.000000	0.000000
+Otu86	Otu40	-1.000000	0.000000
+Otu86	Otu41	-1.000000	0.000000
+Otu86	Otu42	-1.000000	0.000000
+Otu86	Otu43	-1.000000	0.000000
+Otu86	Otu44	-1.000000	0.000000
+Otu86	Otu45	-1.000000	0.000000
+Otu86	Otu46	-1.000000	0.000000
+Otu86	Otu47	1.000000	0.000000
+Otu86	Otu48	1.000000	0.000000
+Otu86	Otu49	1.000000	0.000000
+Otu86	Otu50	1.000000	0.000000
+Otu86	Otu51	1.000000	0.000000
+Otu86	Otu52	1.000000	0.000000
+Otu86	Otu53	1.000000	0.000000
+Otu86	Otu54	1.000000	0.000000
+Otu86	Otu55	1.000000	0.000000
+Otu86	Otu56	1.000000	0.000000
+Otu86	Otu57	1.000000	0.000000
+Otu86	Otu58	1.000000	0.000000
+Otu86	Otu59	1.000000	0.000000
+Otu86	Otu60	1.000000	0.000000
+Otu86	Otu61	1.000000	0.000000
+Otu86	Otu62	1.000000	0.000000
+Otu86	Otu63	1.000000	0.000000
+Otu86	Otu64	1.000000	0.000000
+Otu86	Otu65	1.000000	0.000000
+Otu86	Otu66	1.000000	0.000000
+Otu86	Otu67	1.000000	0.000000
+Otu86	Otu68	1.000000	0.000000
+Otu86	Otu69	1.000000	0.000000
+Otu86	Otu70	1.000000	0.000000
+Otu86	Otu71	1.000000	0.000000
+Otu86	Otu72	1.000000	0.000000
+Otu86	Otu73	1.000000	0.000000
+Otu86	Otu74	1.000000	0.000000
+Otu86	Otu75	1.000000	0.000000
+Otu86	Otu76	1.000000	0.000000
+Otu86	Otu77	1.000000	0.000000
+Otu86	Otu78	1.000000	0.000000
+Otu86	Otu79	1.000000	0.000000
+Otu86	Otu80	1.000000	0.000000
+Otu86	Otu81	1.000000	0.000000
+Otu86	Otu82	1.000000	0.000000
+Otu86	Otu83	1.000000	0.000000
+Otu86	Otu84	1.000000	0.000000
+Otu86	Otu85	1.000000	0.000000
+Otu87	Otu01	-1.000000	0.000000
+Otu87	Otu02	1.000000	0.000000
+Otu87	Otu03	-1.000000	0.000000
+Otu87	Otu04	1.000000	0.000000
+Otu87	Otu05	-nan	0.000000
+Otu87	Otu06	-1.000000	0.000000
+Otu87	Otu07	-1.000000	0.000000
+Otu87	Otu08	-1.000000	0.000000
+Otu87	Otu09	-1.000000	0.000000
+Otu87	Otu10	-1.000000	0.000000
+Otu87	Otu11	-1.000000	0.000000
+Otu87	Otu12	-1.000000	0.000000
+Otu87	Otu13	-1.000000	0.000000
+Otu87	Otu14	-1.000000	0.000000
+Otu87	Otu15	-1.000000	0.000000
+Otu87	Otu16	-1.000000	0.000000
+Otu87	Otu17	-1.000000	0.000000
+Otu87	Otu18	-1.000000	0.000000
+Otu87	Otu19	-1.000000	0.000000
+Otu87	Otu20	-1.000000	0.000000
+Otu87	Otu21	-1.000000	0.000000
+Otu87	Otu22	-1.000000	0.000000
+Otu87	Otu23	-1.000000	0.000000
+Otu87	Otu24	1.000000	0.000000
+Otu87	Otu25	-1.000000	0.000000
+Otu87	Otu26	-1.000000	0.000000
+Otu87	Otu27	-1.000000	0.000000
+Otu87	Otu28	-1.000000	0.000000
+Otu87	Otu29	-1.000000	0.000000
+Otu87	Otu30	-1.000000	0.000000
+Otu87	Otu31	-1.000000	0.000000
+Otu87	Otu32	-1.000000	0.000000
+Otu87	Otu33	-1.000000	0.000000
+Otu87	Otu34	-1.000000	0.000000
+Otu87	Otu35	-1.000000	0.000000
+Otu87	Otu36	-1.000000	0.000000
+Otu87	Otu37	-1.000000	0.000000
+Otu87	Otu38	-1.000000	0.000000
+Otu87	Otu39	-1.000000	0.000000
+Otu87	Otu40	-1.000000	0.000000
+Otu87	Otu41	-1.000000	0.000000
+Otu87	Otu42	-1.000000	0.000000
+Otu87	Otu43	-1.000000	0.000000
+Otu87	Otu44	-1.000000	0.000000
+Otu87	Otu45	-1.000000	0.000000
+Otu87	Otu46	-1.000000	0.000000
+Otu87	Otu47	1.000000	0.000000
+Otu87	Otu48	1.000000	0.000000
+Otu87	Otu49	1.000000	0.000000
+Otu87	Otu50	1.000000	0.000000
+Otu87	Otu51	1.000000	0.000000
+Otu87	Otu52	1.000000	0.000000
+Otu87	Otu53	1.000000	0.000000
+Otu87	Otu54	1.000000	0.000000
+Otu87	Otu55	1.000000	0.000000
+Otu87	Otu56	1.000000	0.000000
+Otu87	Otu57	1.000000	0.000000
+Otu87	Otu58	1.000000	0.000000
+Otu87	Otu59	1.000000	0.000000
+Otu87	Otu60	1.000000	0.000000
+Otu87	Otu61	1.000000	0.000000
+Otu87	Otu62	1.000000	0.000000
+Otu87	Otu63	1.000000	0.000000
+Otu87	Otu64	1.000000	0.000000
+Otu87	Otu65	1.000000	0.000000
+Otu87	Otu66	1.000000	0.000000
+Otu87	Otu67	1.000000	0.000000
+Otu87	Otu68	1.000000	0.000000
+Otu87	Otu69	1.000000	0.000000
+Otu87	Otu70	1.000000	0.000000
+Otu87	Otu71	1.000000	0.000000
+Otu87	Otu72	1.000000	0.000000
+Otu87	Otu73	1.000000	0.000000
+Otu87	Otu74	1.000000	0.000000
+Otu87	Otu75	1.000000	0.000000
+Otu87	Otu76	1.000000	0.000000
+Otu87	Otu77	1.000000	0.000000
+Otu87	Otu78	1.000000	0.000000
+Otu87	Otu79	1.000000	0.000000
+Otu87	Otu80	1.000000	0.000000
+Otu87	Otu81	1.000000	0.000000
+Otu87	Otu82	1.000000	0.000000
+Otu87	Otu83	1.000000	0.000000
+Otu87	Otu84	1.000000	0.000000
+Otu87	Otu85	1.000000	0.000000
+Otu87	Otu86	1.000000	0.000000
+Otu88	Otu01	-1.000000	0.000000
+Otu88	Otu02	1.000000	0.000000
+Otu88	Otu03	-1.000000	0.000000
+Otu88	Otu04	1.000000	0.000000
+Otu88	Otu05	-nan	0.000000
+Otu88	Otu06	-1.000000	0.000000
+Otu88	Otu07	-1.000000	0.000000
+Otu88	Otu08	-1.000000	0.000000
+Otu88	Otu09	-1.000000	0.000000
+Otu88	Otu10	-1.000000	0.000000
+Otu88	Otu11	-1.000000	0.000000
+Otu88	Otu12	-1.000000	0.000000
+Otu88	Otu13	-1.000000	0.000000
+Otu88	Otu14	-1.000000	0.000000
+Otu88	Otu15	-1.000000	0.000000
+Otu88	Otu16	-1.000000	0.000000
+Otu88	Otu17	-1.000000	0.000000
+Otu88	Otu18	-1.000000	0.000000
+Otu88	Otu19	-1.000000	0.000000
+Otu88	Otu20	-1.000000	0.000000
+Otu88	Otu21	-1.000000	0.000000
+Otu88	Otu22	-1.000000	0.000000
+Otu88	Otu23	-1.000000	0.000000
+Otu88	Otu24	1.000000	0.000000
+Otu88	Otu25	-1.000000	0.000000
+Otu88	Otu26	-1.000000	0.000000
+Otu88	Otu27	-1.000000	0.000000
+Otu88	Otu28	-1.000000	0.000000
+Otu88	Otu29	-1.000000	0.000000
+Otu88	Otu30	-1.000000	0.000000
+Otu88	Otu31	-1.000000	0.000000
+Otu88	Otu32	-1.000000	0.000000
+Otu88	Otu33	-1.000000	0.000000
+Otu88	Otu34	-1.000000	0.000000
+Otu88	Otu35	-1.000000	0.000000
+Otu88	Otu36	-1.000000	0.000000
+Otu88	Otu37	-1.000000	0.000000
+Otu88	Otu38	-1.000000	0.000000
+Otu88	Otu39	-1.000000	0.000000
+Otu88	Otu40	-1.000000	0.000000
+Otu88	Otu41	-1.000000	0.000000
+Otu88	Otu42	-1.000000	0.000000
+Otu88	Otu43	-1.000000	0.000000
+Otu88	Otu44	-1.000000	0.000000
+Otu88	Otu45	-1.000000	0.000000
+Otu88	Otu46	-1.000000	0.000000
+Otu88	Otu47	1.000000	0.000000
+Otu88	Otu48	1.000000	0.000000
+Otu88	Otu49	1.000000	0.000000
+Otu88	Otu50	1.000000	0.000000
+Otu88	Otu51	1.000000	0.000000
+Otu88	Otu52	1.000000	0.000000
+Otu88	Otu53	1.000000	0.000000
+Otu88	Otu54	1.000000	0.000000
+Otu88	Otu55	1.000000	0.000000
+Otu88	Otu56	1.000000	0.000000
+Otu88	Otu57	1.000000	0.000000
+Otu88	Otu58	1.000000	0.000000
+Otu88	Otu59	1.000000	0.000000
+Otu88	Otu60	1.000000	0.000000
+Otu88	Otu61	1.000000	0.000000
+Otu88	Otu62	1.000000	0.000000
+Otu88	Otu63	1.000000	0.000000
+Otu88	Otu64	1.000000	0.000000
+Otu88	Otu65	1.000000	0.000000
+Otu88	Otu66	1.000000	0.000000
+Otu88	Otu67	1.000000	0.000000
+Otu88	Otu68	1.000000	0.000000
+Otu88	Otu69	1.000000	0.000000
+Otu88	Otu70	1.000000	0.000000
+Otu88	Otu71	1.000000	0.000000
+Otu88	Otu72	1.000000	0.000000
+Otu88	Otu73	1.000000	0.000000
+Otu88	Otu74	1.000000	0.000000
+Otu88	Otu75	1.000000	0.000000
+Otu88	Otu76	1.000000	0.000000
+Otu88	Otu77	1.000000	0.000000
+Otu88	Otu78	1.000000	0.000000
+Otu88	Otu79	1.000000	0.000000
+Otu88	Otu80	1.000000	0.000000
+Otu88	Otu81	1.000000	0.000000
+Otu88	Otu82	1.000000	0.000000
+Otu88	Otu83	1.000000	0.000000
+Otu88	Otu84	1.000000	0.000000
+Otu88	Otu85	1.000000	0.000000
+Otu88	Otu86	1.000000	0.000000
+Otu88	Otu87	1.000000	0.000000
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/amazon.otus.accnos	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,3 @@
+Otu01
+Otu17
+Otu42
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/esophagus.fn.shared	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,12 @@
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/samplebiom.biom1	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,8668 @@
+{
+      "id":"otu.dat-0.03",
+      "format": "Biological Observation Matrix 0.9.1",
+      "format_url": "http://biom-format.org",
+      "type": "OTU table",
+      "generated_by": "mothur1.36.1",
+      "date": "Mon Jun 26 15:11:52 2017",
+      "rows":[
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+            [3552,1,1],
+            [3553,1,1],
+            [3554,1,1],
+            [3555,0,1],
+            [3556,0,1],
+            [3557,0,1],
+            [3558,0,1],
+            [3559,0,1],
+            [3560,0,1],
+            [3561,0,1],
+            [3562,0,1],
+            [3563,0,1],
+            [3564,0,1],
+            [3565,0,1],
+            [3566,0,1],
+            [3567,0,1],
+            [3568,0,1],
+            [3569,0,1],
+            [3570,0,1],
+            [3571,0,1],
+            [3572,0,1],
+            [3573,1,1],
+            [3574,1,1],
+            [3575,1,1],
+            [3576,1,1],
+            [3577,1,1],
+            [3578,1,1],
+            [3579,1,1],
+            [3580,1,1],
+            [3581,1,1],
+            [3582,1,1],
+            [3583,1,1],
+            [3584,1,1],
+            [3585,1,1],
+            [3586,1,1],
+            [3587,1,1],
+            [3588,1,1],
+            [3589,1,1],
+            [3590,1,1],
+            [3591,1,1],
+            [3592,1,1],
+            [3593,1,1],
+            [3594,1,1],
+            [3595,1,1],
+            [3596,1,1],
+            [3597,0,1],
+            [3598,0,1],
+            [3599,0,1],
+            [3600,0,1],
+            [3601,0,1],
+            [3602,0,1],
+            [3603,0,1],
+            [3604,0,1],
+            [3605,0,1],
+            [3606,0,1],
+            [3607,0,1],
+            [3608,0,1],
+            [3609,1,1],
+            [3610,1,1],
+            [3611,1,1],
+            [3612,1,1],
+            [3613,1,1],
+            [3614,1,1],
+            [3615,1,1],
+            [3616,1,1],
+            [3617,1,1],
+            [3618,1,1],
+            [3619,1,1],
+            [3620,1,1],
+            [3621,1,1],
+            [3622,1,1],
+            [3623,1,1],
+            [3624,1,1],
+            [3625,1,1],
+            [3626,1,1],
+            [3627,1,1],
+            [3628,1,1],
+            [3629,1,1],
+            [3630,1,1],
+            [3631,0,1],
+            [3632,0,1],
+            [3633,0,1],
+            [3634,0,1],
+            [3635,0,1],
+            [3636,0,1],
+            [3637,0,1],
+            [3638,0,1],
+            [3639,1,1],
+            [3640,0,1],
+            [3641,0,1],
+            [3642,1,1],
+            [3643,0,1],
+            [3644,0,1],
+            [3645,1,1],
+            [3646,1,1],
+            [3647,0,1],
+            [3648,1,1],
+            [3649,1,1],
+            [3650,0,1],
+            [3651,1,1],
+            [3652,1,1],
+            [3653,1,1],
+            [3654,0,1],
+            [3655,1,1],
+            [3656,0,1],
+            [3657,1,1],
+            [3658,0,1],
+            [3659,0,1],
+            [3660,0,1],
+            [3661,0,1],
+            [3662,1,1],
+            [3663,1,1],
+            [3664,1,1],
+            [3665,1,1],
+            [3666,0,1],
+            [3667,1,1],
+            [3668,1,1],
+            [3669,1,1],
+            [3670,1,1],
+            [3671,1,1],
+            [3672,1,1],
+            [3673,1,1],
+            [3674,1,1],
+            [3675,1,1],
+            [3676,1,1],
+            [3677,1,1],
+            [3678,1,1],
+            [3679,0,1],
+            [3680,1,1],
+            [3681,0,1],
+            [3682,0,1],
+            [3683,0,1],
+            [3684,0,1],
+            [3685,0,1],
+            [3686,0,1],
+            [3687,1,1],
+            [3688,1,1],
+            [3689,0,1],
+            [3690,0,1],
+            [3691,1,1],
+            [3692,1,1],
+            [3693,1,1],
+            [3694,1,1],
+            [3695,1,1],
+            [3696,1,1],
+            [3697,1,1],
+            [3698,1,1],
+            [3699,1,1],
+            [3700,0,1],
+            [3701,1,1],
+            [3702,1,1],
+            [3703,1,1],
+            [3704,1,1],
+            [3705,1,1],
+            [3706,1,1],
+            [3707,1,1],
+            [3708,1,1],
+            [3709,1,1],
+            [3710,0,1],
+            [3711,1,1],
+            [3712,1,1],
+            [3713,1,1],
+            [3714,1,1],
+            [3715,1,1],
+            [3716,1,1],
+            [3717,1,1],
+            [3718,1,1],
+            [3719,1,1],
+            [3720,1,1],
+            [3721,1,1],
+            [3722,1,1],
+            [3723,1,1],
+            [3724,1,1],
+            [3725,1,1],
+            [3726,1,1],
+            [3727,1,1],
+            [3728,1,1],
+            [3729,1,1],
+            [3730,1,1],
+            [3731,1,1],
+            [3732,1,1],
+            [3733,1,1],
+            [3734,1,1],
+            [3735,1,1],
+            [3736,1,1],
+            [3737,1,1],
+            [3738,1,1],
+            [3739,1,1],
+            [3740,1,1],
+            [3741,1,1],
+            [3742,1,1],
+            [3743,1,1],
+            [3744,1,1],
+            [3745,1,1],
+            [3746,1,1],
+            [3747,1,1],
+            [3748,1,1],
+            [3749,1,1],
+            [3750,1,1],
+            [3751,1,1],
+            [3752,1,1],
+            [3753,1,1],
+            [3754,1,1],
+            [3755,1,1],
+            [3756,1,1],
+            [3757,0,1],
+            [3758,1,1],
+            [3759,1,1],
+            [3760,1,1],
+            [3761,1,1],
+            [3762,1,1],
+            [3763,1,1],
+            [3764,1,1],
+            [3765,1,1],
+            [3766,1,1],
+            [3767,1,1],
+            [3768,0,1],
+            [3769,1,1],
+            [3770,0,1],
+            [3771,0,1],
+            [3772,0,1],
+            [3773,0,1],
+            [3774,0,1],
+            [3775,1,1],
+            [3776,0,1],
+            [3777,1,1],
+            [3778,0,1],
+            [3779,1,1],
+            [3780,1,1],
+            [3781,1,1],
+            [3782,1,1],
+            [3783,1,1],
+            [3784,1,1],
+            [3785,1,1],
+            [3786,1,1],
+            [3787,1,1],
+            [3788,1,1],
+            [3789,1,1],
+            [3790,1,1],
+            [3791,1,1],
+            [3792,0,1],
+            [3793,1,1],
+            [3794,1,1],
+            [3795,1,1],
+            [3796,1,1],
+            [3797,1,1],
+            [3798,1,1],
+            [3799,0,1],
+            [3800,1,1],
+            [3801,1,1],
+            [3802,1,1],
+            [3803,0,1],
+            [3804,0,1],
+            [3805,0,1],
+            [3806,0,1],
+            [3807,0,1],
+            [3808,0,1],
+            [3809,0,1],
+            [3810,0,1],
+            [3811,0,1],
+            [3812,0,1],
+            [3813,0,1],
+            [3814,0,1],
+            [3815,0,1],
+            [3816,0,1],
+            [3817,0,1],
+            [3818,0,1],
+            [3819,0,1],
+            [3820,0,1],
+            [3821,0,1],
+            [3822,0,1],
+            [3823,0,1],
+            [3824,0,1],
+            [3825,0,1],
+            [3826,0,1],
+            [3827,0,1],
+            [3828,1,1],
+            [3829,0,1],
+            [3830,0,1],
+            [3831,0,1],
+            [3832,0,1],
+            [3833,0,1],
+            [3834,1,1],
+            [3835,1,1],
+            [3836,0,1],
+            [3837,0,1],
+            [3838,0,1],
+            [3839,0,1],
+            [3840,1,1],
+            [3841,0,1],
+            [3842,0,1],
+            [3843,0,1],
+            [3844,1,1],
+            [3845,0,1],
+            [3846,0,1],
+            [3847,0,1],
+            [3848,0,1],
+            [3849,0,1],
+            [3850,0,1],
+            [3851,0,1],
+            [3852,0,1],
+            [3853,0,1],
+            [3854,0,1],
+            [3855,0,1],
+            [3856,0,1],
+            [3857,0,1],
+            [3858,0,1],
+            [3859,0,1],
+            [3860,0,1],
+            [3861,0,1],
+            [3862,0,1],
+            [3863,0,1],
+            [3864,0,1],
+            [3865,0,1],
+            [3866,0,1],
+            [3867,0,1],
+            [3868,0,1],
+            [3869,0,1],
+            [3870,0,1],
+            [3871,0,1],
+            [3872,0,1],
+            [3873,0,1],
+            [3874,0,1],
+            [3875,0,1],
+            [3876,0,1],
+            [3877,0,1],
+            [3878,0,1],
+            [3879,0,1],
+            [3880,0,1],
+            [3881,0,1],
+            [3882,0,1],
+            [3883,0,1],
+            [3884,0,1],
+            [3885,0,1],
+            [3886,0,1],
+            [3887,0,1],
+            [3888,0,1],
+            [3889,0,1],
+            [3890,0,1],
+            [3891,0,1],
+            [3892,0,1],
+            [3893,0,1],
+            [3894,0,1],
+            [3895,0,1],
+            [3896,0,1],
+            [3897,0,1],
+            [3898,0,1],
+            [3899,0,1],
+            [3900,0,1],
+            [3901,0,1],
+            [3902,0,1],
+            [3903,1,1],
+            [3904,1,1],
+            [3905,0,1],
+            [3906,1,1],
+            [3907,1,1],
+            [3908,0,1],
+            [3909,0,1],
+            [3910,1,1],
+            [3911,0,1],
+            [3912,0,1],
+            [3913,1,1],
+            [3914,0,1],
+            [3915,0,1],
+            [3916,0,1],
+            [3917,1,1],
+            [3918,1,1],
+            [3919,1,1],
+            [3920,0,1],
+            [3921,1,1],
+            [3922,1,1],
+            [3923,0,1],
+            [3924,0,1],
+            [3925,1,1],
+            [3926,0,1],
+            [3927,0,1],
+            [3928,0,1],
+            [3929,1,1],
+            [3930,0,1],
+            [3931,1,1],
+            [3932,0,1],
+            [3933,0,1],
+            [3934,0,1],
+            [3935,0,1],
+            [3936,0,1],
+            [3937,0,1],
+            [3938,0,1],
+            [3939,0,1],
+            [3940,0,1],
+            [3941,1,1],
+            [3942,0,1],
+            [3943,0,1],
+            [3944,0,1],
+            [3945,0,1],
+            [3946,0,1],
+            [3947,0,1],
+            [3948,1,1],
+            [3949,0,1],
+            [3950,1,1],
+            [3951,0,1],
+            [3952,1,1],
+            [3953,0,1],
+            [3954,0,1],
+            [3955,0,1],
+            [3956,0,1],
+            [3957,1,1],
+            [3958,0,1],
+            [3959,0,1],
+            [3960,0,1],
+            [3961,1,1],
+            [3962,1,1],
+            [3963,0,1],
+            [3964,0,1],
+            [3965,0,1],
+            [3966,0,1],
+            [3967,0,1],
+            [3968,1,1],
+            [3969,0,1],
+            [3970,0,1],
+            [3971,0,1],
+            [3972,0,1],
+            [3973,0,1],
+            [3974,0,1],
+            [3975,0,1],
+            [3976,1,1],
+            [3977,1,1],
+            [3978,0,1],
+            [3979,0,1],
+            [3980,0,1],
+            [3981,1,1],
+            [3982,0,1],
+            [3983,1,1],
+            [3984,0,1],
+            [3985,0,1],
+            [3986,0,1]]
+}
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/stool_small.count_table	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,47 @@
+Representative_Sequence	total
+F11Fcsw_12747	1
+F11Fcsw_13125	1
+F11Fcsw_13572	2
+F11Fcsw_13584	1
+F11Fcsw_13612	2
+F11Fcsw_13784	2
+F11Fcsw_14513	1
+F11Fcsw_14920	1
+F11Fcsw_14954	1
+F11Fcsw_14980	1
+F11Fcsw_15042	1
+F11Fcsw_15664	1
+F11Fcsw_17394	1
+F11Fcsw_17898	1
+F11Fcsw_18564	1
+F11Fcsw_19115	1
+F11Fcsw_19402	1
+F11Fcsw_19500	1
+F11Fcsw_20028	1
+F11Fcsw_20361	1
+F11Fcsw_20429	1
+F11Fcsw_20462	1
+F11Fcsw_20686	1
+F11Fcsw_21035	1
+F11Fcsw_21196	1
+F11Fcsw_21505	1
+F11Fcsw_21636	1
+F11Fcsw_21645	1
+F11Fcsw_21954	1
+F11Fcsw_22687	1
+F11Fcsw_22831	1
+F11Fcsw_22880	1
+F11Fcsw_22900	1
+F11Fcsw_23043	1
+F11Fcsw_23322	1
+F11Fcsw_23608	1
+F11Fcsw_23684	1
+F11Fcsw_24087	1
+F11Fcsw_24273	1
+F11Fcsw_24701	2
+F11Fcsw_24967	1
+F11Fcsw_25501	1
+F11Fcsw_25574	1
+F11Fcsw_26078	1
+F11Fcsw_26175	1
+F11Fcsw_26418	1
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/stool_small.denovo.vsearch.accnos	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,2 @@
+F11Fcsw_21505
+F11Fcsw_23322
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/stool_small.names	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,46 @@
+F11Fcsw_12747	F11Fcsw_12747
+F11Fcsw_13125	F11Fcsw_13125
+F11Fcsw_13572	F11Fcsw_13572,F11Fcsw_14202
+F11Fcsw_13584	F11Fcsw_13584
+F11Fcsw_13612	F11Fcsw_13612,F11Fcsw_23132
+F11Fcsw_13784	F11Fcsw_13784,F11Fcsw_21715
+F11Fcsw_14513	F11Fcsw_14513
+F11Fcsw_14920	F11Fcsw_14920
+F11Fcsw_14954	F11Fcsw_14954
+F11Fcsw_14980	F11Fcsw_14980
+F11Fcsw_15042	F11Fcsw_15042
+F11Fcsw_15664	F11Fcsw_15664
+F11Fcsw_17394	F11Fcsw_17394
+F11Fcsw_17898	F11Fcsw_17898
+F11Fcsw_18564	F11Fcsw_18564
+F11Fcsw_19115	F11Fcsw_19115
+F11Fcsw_19402	F11Fcsw_19402
+F11Fcsw_19500	F11Fcsw_19500
+F11Fcsw_20028	F11Fcsw_20028
+F11Fcsw_20361	F11Fcsw_20361
+F11Fcsw_20429	F11Fcsw_20429
+F11Fcsw_20462	F11Fcsw_20462
+F11Fcsw_20686	F11Fcsw_20686
+F11Fcsw_21035	F11Fcsw_21035
+F11Fcsw_21196	F11Fcsw_21196
+F11Fcsw_21505	F11Fcsw_21505
+F11Fcsw_21636	F11Fcsw_21636
+F11Fcsw_21645	F11Fcsw_21645
+F11Fcsw_21954	F11Fcsw_21954
+F11Fcsw_22687	F11Fcsw_22687
+F11Fcsw_22831	F11Fcsw_22831
+F11Fcsw_22880	F11Fcsw_22880
+F11Fcsw_22900	F11Fcsw_22900
+F11Fcsw_23043	F11Fcsw_23043
+F11Fcsw_23322	F11Fcsw_23322
+F11Fcsw_23608	F11Fcsw_23608
+F11Fcsw_23684	F11Fcsw_23684
+F11Fcsw_24087	F11Fcsw_24087
+F11Fcsw_24273	F11Fcsw_24273
+F11Fcsw_24701	F11Fcsw_24701,F11Fcsw_24794
+F11Fcsw_24967	F11Fcsw_24967
+F11Fcsw_25501	F11Fcsw_25501
+F11Fcsw_25574	F11Fcsw_25574
+F11Fcsw_26078	F11Fcsw_26078
+F11Fcsw_26175	F11Fcsw_26175
+F11Fcsw_26418	F11Fcsw_26418
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/stool_small.unique.fasta	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,92 @@
+>F11Fcsw_12747
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAATGTGGCCGTTCAACCTCTCAGTCCGGCTACTGATCGCAGCCTTGGTGAGCCGTTACCTCACCAACTAGCTAATCAGATATGAGCCCATCTTTCAGCGGATTGCTCCTTTGGTATCCCAGAGATGCCTCCAAAATACATTATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCTCTGAAAGGCAGG
+>F11Fcsw_13125
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAATGTGGCCGTTCATCCTCTCAGACCGGCTACTGATCGTCGCCTTGGTAGGCCGTTACCCCACCAACTAGCTAATCAGACGCAGACCCATCGTAAAGCGATAGCTTACAAGTAGAGGCCATCTTTAGTCGAGCTTCCATGCGGAAGTTCGACAACATTCGGTATTAGCAGTCCTTTCGAACTGTTGTCCCCATCTTTACGG
+>F11Fcsw_13572
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACCCATCGTCGCCTTGGTGGGCCGTTACCCCGCCAACAAGCTAATGGGACGCATCCCCATCCTTTACCAATTAATCTTTATTTGTCGCTCCCATGCGGAAAGACAAACACATCCGGTATTAAACTCCCTTTCAGGAGACTATCCCGGAGTAAAGGGCAGGTTGGATACGCGTTACTCACCCGTGCGCCGGTCGCCATCAAAA
+>F11Fcsw_13584
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTATCCATCGATGTCTTGGTGGGCCGTTACCCCGCCAACAAACTAATGGAACGCATCCCCATCGGTTATCGAAATTCTTTAATAACAAGAAGATGCCTTCTCGTTATACTATCCGGTATTAATCTTTCTTTCGAAAGGCTATCCCGGAATAACCGGTAGGTTGGATACGTGTTACTCACCCGTGCGCCGGTCGCCATCAACCTA
+>F11Fcsw_13612
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGTCCGTGTCTCAGTACCAATGTGGGGGACCTTCCTCTCAGAACCCCTACGCATCGTCGCCTTGGTGGGCCGTTACCCCCCAACTAGCTAATGCGCCGCATGCCCATCCCTGTCCGGATTACTCCTTTGGCGCTCGCAGGATGCCCCGCAAACGCTTTATGCGATATTAGACCGGATTTCTCCGGATTATCCCTCTGACAGGGGCAGGTTGCATACGTGTTACTCACCCG
+>F11Fcsw_13784
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCAACCTCTCAGTCCGGCTACCGATCGTCGACTTGGTGAGCCGTTACCTCACCAACTATCTAATCGGACGCGAGCCCATCTTTCAGCGGATTGCTCCTTTGATCACTGTATCATGCGGTACTGTAATCTTATGCGGTATTAGCATCTGTTTCCAAATGTTATCCCCCTCTGAAAGGCAGGTTG
+>F11Fcsw_14513
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTATCTCAGTTCCAATGTGGCCGATCACCCTCTCAGGTCGGCTAACCATCGTCGACTTGGTAGTCCGTTACACTACCAACTATCTAATGGTACGCGAGCCCATCCACATCCGATAAATCTTTTACCCCTGAGAGATGCCTCTCTGTGGTCTTATGCGGTATTAGCACACATTTCTATGTGTTATTCCCCAGATGTGGGCAGGTTG
+>F11Fcsw_14920
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGTCCATCCTCTCAGACCGGCTACTGATCGTCGCCTTGGTGAGCCATTACCTCTCCAACTAGCTAATCAGACGCGGGCCCATCCTATACCACCTGAGTTTTTCCTACCGTATCATGCGGTACTGTAGGCTTATGCGGTTTTAGCACAGATTTCTCTGTGTTATCCCCTGTATAGGGCAGGTTACCCACGCGTTT
+>F11Fcsw_14954
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAATGTGGCCGGCCAACCTCTCAGTCCGGCTACCGATCGTCGACTTGGTGGGCCGTTACCCCGCCAACTATCTAATCGGACGCGAGGCCATCTTTCAGCGATAAATCTTTGGCATGTCCGGGATGCCCCGGTCATGCGTCATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCTCTGAAAGGCAGGTTCCTCACGCGTTACT
+>F11Fcsw_14980
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTTTCTCAGTTCCAATGTGGCCGTTCATCCTCTCAGATCGGCTACCCATCGTCGCCTTGGTGAGCCGTTACCTCTCCAACTAGCTAATGGGCCGCGAGCCCCTCCTATACCGCCTCAGCTTTTACCCCTCTCCGATGCCGGAGTGTGGTCTTATACCGTATTAGCACAAATTTCTCTGTGTTATCCCGTTGTATAGGATAGGTTGCTCACGTGTTACTCACCCG
+>F11Fcsw_15042
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGGTCGCCCTCTCAGGCCGGCTACTGATCGTCGGTTTGGTGGGCCGTTACCCCGCCAACTGCCTAATCAGACGCGGGCCCATCCCATACCACCGGAGTTTTTCACACTGAGCCATGCAGCTCTGTGCGCTTATGCGGTATTAGCAGCCGTTTCCAGCTGTTATCCCCCGGTATGGGGCAGGTCACCCACGCGTTACT
+>F11Fcsw_15664
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACCAGCTAATCAGACGCGGGTCCATCTTGTACCACCGGAGTTTTTCACACTGCTTCATGCGAAGCTGTGCGCTTATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCAGTACAAGGCAGGTTACCCACGCGTTACT
+>F11Fcsw_17394
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGGTCACCCTCTCAGGTCGGCTACTGATCGTTGCCTTGGTAGGCCGTTACCCCGCCAACAAGCTAATCAGACGCGGGTCCATCTCACACCACCGGAGTTTTTCACACTGTACCATGCGGTACTGTGCGCTTATGCGGTATTATCAGCCGTTTCCAACTGCTATCCCCCTGTGTGAGGCAGGTTACCCACGCGTTA
+>F11Fcsw_17898
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACCAGCTAATCAGACGCGGGTCCATCTTATACCACCGGAGTTTTTCACACTGTATCATGCGATACCGTGCGCTTATGCGGTATTAGCAGTCGTTTCCAACTGTTATCCCCCTGTATAAGGCAGGTTACCCACGCGTTACTCACCCG
+>F11Fcsw_18564
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGATCAACCTCTCAGTCCGGCTACTGATCGTCGACTTGGTGAGCCGTTACCTCACCAACTATCTAATCGGACGCGAGCCCATCTTTCAGCGGATTGCTCCTTTGATCACTGTATCATGCGGTACTGTAATCTTATGCGGTATTAGCATCTGTTTCCAAATGTTATCCCCCTCTGAAAGG
+>F11Fcsw_19115
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACTGATCGTTGCCTTGGTGGGCCGTTACCCCGCCAACAAGCTAATCAGACGCATCCCCATCCATCACCGATAAATCTTTAATCTCTTTCAGATGCCTTCTAGAGATATCATTGGGTATTAGTCTTACTTTGCAGGTTATCCCCAACGTGGTGGGCGAGGTTGGATACGCGTTACTCACCCGTCCCG
+>F11Fcsw_19402
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCTGTGTCTCAGTCCCAATGTGGCCGATCAACCTCTCAGTCCGGCTACTGATCGTCGACTTGGTGAGCCGTTACCTCACCAACTATCTAATCAGACGCGAGCCCATCTTTCAGCGGATTGCTCCTTTGATTGCCAAACGATGCCGTTCGGCAATGTTATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCACTGAAAGGTAGGTTG
+>F11Fcsw_19500
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACCAGCTAATCAGACGCGAGGCCATCTTTCAGCGGATTGCTCCTTTGATCACTGTATCATGCGGTACTGTAATCTTATGCGGTATTAGCATCTGTTTCCAAATGTTATCCCCCTCTGAAAGGCAGGTTG
+>F11Fcsw_20028
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTATGGGCCGTGTCTCAGTCCCATTGTGGCTGATCATCCTCTCAAACCAGCTACTGATCGTCGCCTTGGTAGTCCATTACACCACCAACAAGCTAATCAGGTGCAGGCTCATCCTAGAGCACCGGAGTTTTCAAGATTGGTATTTCAACCAAGCTCATATGGGGTATTAGCAGAAGTTTCCTTCTGTTGTCCCCCTCTCTAGGGCAGATTT
+>F11Fcsw_20361
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGTCCGTGTCTCAGTACCAGTGTGGGGGGTTAACCTCTCAGTCCCCCTATGTATCGTTGCCTTGGTGAGCCGTTACCTCACCAACTAGCTAATACAACGCATGTCCATCTATAACCACCGGAGTTTTCAACCCGGAGAGATGCCTCTCCGAATATTATGGGGAATTAGTACCAATTTCTCAGTGTTATGCCCCTGTTATAGGTAGGTTACATACGCGTTACGCACCCGTGCGCCGG
+>F11Fcsw_20429
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTATCCATCGTTGTCTTGGTGGGCCGTTACCCCGCCAACAAACTAATGGAACGCATCCCCATCGATAACCGAAATTCTTTAATAAAAATATCATGCGATATTCGTATGCTATCCGGTATTAATCTTTCTTTCGAAAGGCTATCCCCGAGTTATCGGCAGGTTGGATACGTGTTACTCACCCGTGCGCCGGTCGCCA
+>F11Fcsw_20462
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTATGGGCCGTGTCTCAGTCCCATTGTGGCTGATCATCCTCTCAAACCAGCTACTGATCGTCGCCTTGGTAGTCCATTACACCACCAACAAGCTAATCAGGTGCAGGCTCATCCTAGAGCACCGGAGTTTTCAAGATTGGTATTTCAACCAAGCTCATATGGGGTATTAGCAGAAGTTTCCTTCTGTTGTCCCCCTCTCTAGGGCAGATTTT
+>F11Fcsw_20686
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACCAGCTAATCAGACGCGGGTCCATCTTATACCACCGGAGTTTTTCACACGGAACCATGCGGTTCTGTGCGCTTATGCGGTATTAGCAGCCATTTCTGGCTGTTATCCCCCTCTGAAAGGCAGGTTGCTCACGCG
+>F11Fcsw_21035
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTATCTCAGTTCCAATGTGGCCGTTCAACCTCTCAGTCCGGCTACTGATCGTCGGCTTGGTGAGCCGTTACCTCACCAACTACCTAATCAGACGCGAGTCCATCTGCAAGCGGTTTCCCTTTGGCATCATCTCCATGCGGAATCGATGCGTTATGCGGTATTAGCAACAGTTTCCCGTTGTTATCCCCCTCTCGCAGGCAGGTTACT
+>F11Fcsw_21196
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCAACCTCTCAGTCCGGCTACCGATCGTCGGCTTGGTGGGCTGTTATCTCACCAACTACCTAATCGGCCGCGAGCCCATCTCTCAGCGATAAAATCTTTGATAGTCTCCGGATGCCCGGAAACTATGTTATGCGGTATTAGCGTTCGTTTCCAAACGTTATTCCACTCTGAAAGGCAGGTTACTCACGTGTTACT
+>F11Fcsw_21505
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACCCATCGTTGGCTTGGTGGGCCGTTACCCCTCCAACTACCTAATGGGACGCGAACCCCTCTCAAAGCGATAAATCTTTGACCCCTTCATCATGCGGTGTTGTGGTCTCATGCGGTATTAGCAACAGTTTCCCGTTGTTATCCCCCTCTTTGAGTCAGGTTATCCACGCGTTACTCACCCGTCCGCCACTCAGT
+>F11Fcsw_21636
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCATCCTCTCAGACCGGCTACTGATCATCGCCTTGGTAGGCCGTTACCCCACCAACTAGCTAATCAGACGCAGGCCCATCCTCTAGCGATAGCTTATAAATAGAGGCCATCTTTCACAGCATCCTCATGCGAGATTGCTGTCACATTCGGTATTAGCACCCTTCGGA
+>F11Fcsw_21645
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTATCCATCGAAGGCTTGGTGGGCCGTTACCCCGCCAACAACCTAATGGAACGCATCCCCATCGATGACCGAAATTCTTTAATAGTTCTACCATGCGGAAGAACTATGCCATCGGGTATTAATCTTTCTTTCGAAAGGCTATCCCCGAGTCATCGGCAGGTTGGATACGTGTTACTCACCCGTGCGCCGGTCG
+>F11Fcsw_21954
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACCCATCGTCGCCTTGGTGGGCCGTTACCCCGCCAACAAGCTAATGGGACGCATCCCCATCCTTTACCAATTAATCTTTATTTGTCGCTCCCATGCGGAAAGACAAACACATCCGGTATTAAACTCCCTTTCAGGAGACTATCCCGGAGTAAAGGGCAGGTTGGATACGCGTTACTCACCCGTGCGCCGGTCGCCATCAAA
+>F11Fcsw_22687
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACTGATCGTTGCCTTGGTGGGCCATTACCCCGCCAACAAGCTAATCAGACGCATCCCCATCCATCACCGATAAATCTTTAATCTCTTTCAGATGTCTTCTAGAGATATCATTGGGTATTAGTCTTACTTTGCAGGTTATCCCAACGTGGTGGGCGAGGTTGGATACGCGTTACTCACCCG
+>F11Fcsw_22831
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGGCCTTCCTCTCAGAACCCCTATCCATCGAAGACTAGGTGGGCCGTTACCCCGCCTACTATCTAATGGAACGCATCCCCATCGTCTACCGGAATACCTTTAATCATGTGAACATGCGGACTCATGATGCCATCTTGTATTAATCTTCCTTTCAGAAGGCTGTCCAAGAGTAGACGGCAGGTTGGATACGTGTTACT
+>F11Fcsw_22880
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTATGGATCGTCGCCTTGGTGGGCCGTTACCCCACCAACTAGCTAATCCAACGCGGGTCCATCTTATACCACCGGAGTTTTTCACACTGAGCCATGCAGCTCTGTGCGCTTATGCGGTATTAGCAGTCATTTCTGACTGTTATCCCCCTGTATAAGGCAGGTTACCCACGCG
+>F11Fcsw_22900
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCCGATCAGCCTCTCAGCTCGGCTACCCATCGTTGGCTTGGTGGGCCGTTACCCCTCCAACTACCTAATGGGACGCGAACCCCTCTCAAAGCGATAAATCTTTGACCCCTTCATCATGCGGTGTTGTGGTCTCATGCGGTATTAGCAACAGTTTCCCGTTGTTATCCCCCTCTTTGAGTCAGGTTATTCACGCGTTACTCACCCG
+>F11Fcsw_23043
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAATGTGGCCGGTCAACCTCTCAGTCCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACCAGCTAATCAGACGCGGGTCCATCTTGTACCACCGGAGTTTTTCACACTGCTTCATGCGAAGCTGTGCGCTTATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCAGTACAAGGCAGGTTACCCACGCGTTA
+>F11Fcsw_23322
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGATCAGCCTCTCAGCTCGGCTACCCATCGTCGGCTAGGTGGGCCGTTACCCCGCCTACTACCTAATGGGACGCGAACCCCTCCCAAAGCGATTTTCTTTGACCCCTTCGTCATGCGACATTGTGGTCTTATGCGGTATTAGCACCTGTTTCCAGGTGTTATCCCCCTCTTTGGGTCAGGTTATTCACGTGTTACTCACCCGTGCGCCAA
+>F11Fcsw_23608
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACTGATCGTAGCCTTGGTGGGCCGTTACCCCGCCAACAAGCTAATCAGACGCATCCCCATCCATCACCGATAAATCTTTAATCTCTTTCAGATGTCTTCTAGAGATATCATTGGGTATTAGTCTTACTTTGCAAGGTTATCCCAAGTGATGGGCAGGTTGGATACGCGTTACTCACCCG
+>F11Fcsw_23684
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTACTGATCGTCGCCTTGGTGGGCCGTTACCCCGCCAACAAGCTAATCAGACGCATCCCCATCCATCACCGATAAATCTTTAATCCCTTTCAGATGTCTTCTAGAGACGTCATTGGGTATTAGTCTTACTTTCGCAAGGTTATCCCAAGTGATGGGCAGGTTGGATACGCGTTACTCACCCGTGCG
+>F11Fcsw_24087
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGTTCACCCTCTCAGGCCGGCTATGGATCGTCGCCTTGGTGGGCCGTTACCTCACCAACAAGCTAATCCAACGCGGGTCCATCTTATACCACCGGAGTTTTTCACACTGAGCCATGCAGCTCTGTGCGCTTATGCGGTATTAGCAGCCATTTCTGACTGTTATCCCCCTGTATAAGGCAGGTTACCCACG
+>F11Fcsw_24273
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAATGTGGCCGTTCAACCTCTCAGTCCGGCTACTGATCGTCGACTTGGTAGGCCGTTACCCCACCAACTATCTAATCAGACGCGAGCCCATCTATCAGCGGATTACTCCTTTCCCACTTTCATCATGTGATATTTATTGGCATATGCGGTATTAGCAATGATTTCTCACTGTTATTCCCCTCCTGATAGGCG
+>F11Fcsw_24701
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCCGATCAGCCTCTCAGCTCGGCTACCCATCGTCGGCTAGGTGGGCTGTTACCCCGCCTACTACCTAATGGGACGCGAACCCCTCCCAAAGCGATTTTCTTTGACCCCTTCGTCATGCGACATTGTGGTCTTATGCGGTATTAGCACCTGTTTCCAGGTGTTATCCCCCTCTTTGGGTCAGGTTATTCACGTGTTACTCACCCGTGCG
+>F11Fcsw_24967
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGACCGTGTCTCAGTTCCAATGTGGGGGACCTTCCTCTCAGAACCCCTATCCATCGAAGACTAGGTGGGCCGTTACCCCGCCTACTATCTAATGGAACGCATCCCCATCGTCTACCGGAATACCTTTAATCATGTGAACATGCGGACTCATGATGCCATCTTGTATTAATCTTCCTTTCAGAAGGCTGTCCAAGAGTAGACGGCAGGTTGGATACGTGTTACT
+>F11Fcsw_25501
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGGTCAACCTCTCAGTCCGGCTACTGATCGTCGACTTGGTGGGCCGTTACCCCGCCAACTATCTAATCAGACGCGAGGCCATCTTTCAGCGATAAATCTTTGGCATTTCGACCATGCGATCAAAATGCGTCATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCTCTGAAAGGCAGGTTCCTCACG
+>F11Fcsw_25574
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGATCACCCTCTCAGGTCGGCTACCGATCGTCGGCTTGGTGGGCCGTTACCTCACCAACTACCTAATCGGACGCGAGCCCACCCCAAACCGATAAATCTTTTACCTCAGAACCATGTGATCCCGTGGTCTTATGCGGTATTAGTACACCTTTCGGTGTGTTATTCCCCTGTCTGGAAAAGGTTGCTCACGCGTTACTCACCCGTCCGCCGCTAAAACAG
+>F11Fcsw_26078
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCCGATCAGCCTCTCAGCTCGGCTACCCATCGTCGGCTAGGTGGGCTGTTATCCCGCCTACTACCTAATGGGACGCGAACCCCTCCCAAAGCGATTTTCTTTGACCCCTTCGTCATGCGACATTGTGGTCTTATGCGGTATTAGCACCTGTTTCCAGGTGTTATCCCCCCTCTTTGGGTCAGGTTATTCACGTGTTACTCA
+>F11Fcsw_26175
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTTTGGGCCGTGTCTCAGTCCCAATGTGGCCGATCACCCTCTCAGGTCGGCTACCGATCGTCGGCTTGGTGGGCCGTTACCTCACCAACTACCTAATCGGACGCGAGCCCACCCCAAACCGATAAATCTTTTACCCCAGAACCATGTGATCCCGTGGTCTTATGCGGTATTAGTACACCTTTCGGTGTGTTATTCCCCTGTCTGGGAAAGGTTGCTCACGCGTTACTCACCCGTCCGCCGCTAAAACAG
+>F11Fcsw_26418
+AGAGAGCAAGTGCATGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAATGTGGCCGGTCACCCTCTCAGGTCGGCTACTGATCGTCGCCTTGGTGGGCCGTTACCCCGCCAACCAGCTAATCAGACGCGGGTCCATCCTGTACCACCGGAGTTTTTCACACTGCTTCATGCGAAGCTGTGCGCTTATGCGGTATTAGCAGTCGTTTCCAACTGTTGTCCCCCTGTACAGGGCAGGTTACCCACGCGTTACT
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/stool_small.vsearch.chimeras	Tue Mar 20 22:17:34 2018 -0400
@@ -0,0 +1,47 @@
+Score	Query	ParentA	ParentB	IdQM	IdQA	IdQB	IdAB	IdQT	LY	LN	LA	RY	RN	RA	Div	YN
+0.0000	F11Fcsw_13572;size=2;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_13612;size=2;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_13784;size=2;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_24701;size=2;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_12747;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0514	F11Fcsw_13125;size=1;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	F11Fcsw_13784;size=2;	80.5	77.1	80.1	72.7	80.1	21	20	19	8	0	6	0.4	N
+0.1560	F11Fcsw_13584;size=1;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	82.5	80.4	72.9	73.3	80.4	23	0	8	15	10	24	2.1	N
+0.0259	F11Fcsw_14513;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	82.7	79.3	81.4	81.9	81.4	11	8	11	11	3	19	1.3	N
+0.0550	F11Fcsw_14920;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_13784;size=2;	84.7	83.5	76.3	80.9	83.5	23	3	21	5	2	10	1.3	N
+0.0000	F11Fcsw_14954;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0216	F11Fcsw_14980;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	82.0	79.1	80.8	82.4	80.8	7	4	6	12	5	28	1.3	N
+0.0400	F11Fcsw_15042;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_13784;size=2;	84.6	82.9	79.1	79.9	82.9	21	8	18	5	1	9	1.7	N
+0.0524	F11Fcsw_15664;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	84.6	83.8	71.7	72.9	83.8	41	10	25	3	1	1	0.8	N
+0.0000	F11Fcsw_17394;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0428	F11Fcsw_17898;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	86.7	86.2	71.7	72.5	86.2	45	9	21	2	1	1	0.4	N
+0.0000	F11Fcsw_18564;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_19115;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_19402;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_19500;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0158	F11Fcsw_20028;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	77.8	77.4	70.4	73.0	77.4	32	15	35	1	0	1	0.4	N
+0.0161	F11Fcsw_20361;size=1;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	F11Fcsw_13784;size=2;	77.5	71.4	77.1	73.1	77.1	2	1	3	28	14	33	0.4	N
+0.1919	F11Fcsw_20429;size=1;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	84.6	82.1	75.4	73.3	82.1	22	0	5	16	10	22	2.5	N
+0.0158	F11Fcsw_20462;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	77.8	77.4	70.4	73.0	77.4	32	15	35	1	0	1	0.4	N
+0.0000	F11Fcsw_20686;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0422	F11Fcsw_21035;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_13784;size=2;	86.3	84.6	81.3	82.2	84.6	16	4	4	8	4	21	1.7	N
+0.0000	F11Fcsw_21196;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.5878	F11Fcsw_21505;size=1;	F11Fcsw_13572;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	92.4	76.7	88.2	72.1	88.2	11	0	0	48	7	13	4.2	Y
+0.0000	F11Fcsw_21636;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_21645;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_21954;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_22687;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_22831;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0322	F11Fcsw_22880;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	83.3	82.9	70.8	72.5	82.9	41	11	27	2	1	1	0.4	N
+0.0000	F11Fcsw_22900;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_23043;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.5123	F11Fcsw_23322;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	99.2	83.0	97.9	81.7	97.9	3	0	1	40	1	0	1.2	Y
+0.0000	F11Fcsw_23608;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_23684;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0324	F11Fcsw_24087;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	83.8	83.3	71.2	72.5	83.3	41	11	26	2	1	1	0.4	N
+0.0000	F11Fcsw_24273;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_24967;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0000	F11Fcsw_25501;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0461	F11Fcsw_25574;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	84.9	80.8	82.0	82.4	82.0	12	5	3	14	4	24	2.9	N
+0.0000	F11Fcsw_26078;size=1;	*	*	*	*	*	*	*	*	0	0	0	0	0	0	*	N
+0.0509	F11Fcsw_26175;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_24701;size=2;	F11Fcsw_24701;size=2;	85.8	81.2	82.8	82.4	82.8	12	5	3	15	4	22	2.9	N
+0.0696	F11Fcsw_26418;size=1;	F11Fcsw_13784;size=2;	F11Fcsw_13572;size=2;	F11Fcsw_13784;size=2;	83.3	82.1	72.5	72.9	82.1	38	12	27	3	0	1	1.2	N