# HG changeset patch
# User iuc
# Date 1610732315 0
# Node ID 7ed2edc1337f91851e55af4da347af48b2d6a90b
# Parent  e132e7d02a3e4ad87425ab59cb71e7c1afbcd39d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rgrnastar commit 00c545ddbf0f008903f4b4c11d476e6089c3f531"

diff -r e132e7d02a3e -r 7ed2edc1337f macros.xml
--- a/macros.xml	Fri Dec 04 22:05:07 2020 +0000
+++ b/macros.xml	Fri Jan 15 17:38:35 2021 +0000
@@ -5,7 +5,7 @@
     the index versions in sync, but you should manually adjust the +galaxy
     version number. -->
     <!-- STAR version to be used -->
-    <token name="@VERSION@">2.7.6a</token>
+    <token name="@VERSION@">2.7.7a</token>
     <!-- STAR index version compatible with this version of STAR
     This is the STAR version that introduced the index structure expected
     by the current version.
@@ -33,7 +33,7 @@
             <edam_operation>operation_0292</edam_operation>
         </edam_operations>
     </xml>
-    
+
     <xml name="index_selection" token_with_gene_model="0">
         <param argument="--genomeDir" name="genomeDir" type="select"
         label="Select reference genome"
@@ -132,6 +132,35 @@
         #end if
         #end if
         ]]></token>
+    <token name="@READSHANDLING@" ><![CDATA[
+    ## Check that the input pairs are of the same type
+    ## otherwise STARsolo will run for a long time and then error out.
+    ## We consume either repeats of two inputs R1 + R2
+    ## or a collection of paired reads.
+    #if str($sc.input_types.use) == "repeat":
+        #set $reads1 = []
+        #set $reads2 = []
+        #for $r1, $r2 in zip($sc.input_types.input1, $sc.input_types.input2):
+            #assert $r1.datatype == $r2.datatype
+            #silent $reads1.append(str($r1))
+            #silent $reads2.append(str($r2))
+        #end for
+        #set $reads1 = ','.join($reads1)
+        #set $reads2 = ','.join($reads2)
+    #elif str($sc.input_types.use) == "list_paired":
+        #set $r1 = $sc.input_types.input_collection.forward
+        #set $r2 = $sc.input_types.input_collection.reverse
+        #set $reads1 = $r1
+        #set $reads2 = $r2
+    #end if
+    ## cDNA sequence(s) [R2] always go first, then barcode(s) [R1]
+    ## see: Section 3.2 of STAR manual for multiple inputs, and Section 13 for STARsolo inputs
+    --readFilesIn $reads2 $reads1
+    --soloCBmatchWLtype $sc.soloCBmatchWLtype
+    #if $r1.is_of_type('fastq.gz', 'fastqsanger.gz'):
+        @FASTQ_GZ_OPTION@
+    #end if
+    ]]></token>
     <xml name="ref_selection">
         <param argument="--genomeFastaFiles" type="data" format="fasta" label="Select a reference genome" />
         <!-- Currently, this parameter is not exposed in the wrapper,
@@ -148,4 +177,53 @@
             <yield />
         </stdio>
     </xml>
+    <xml name="input_selection">
+        <conditional name="input_types" >
+            <param name="use" type="select" label="Input Type" >
+                <option value="repeat" >Separate barcode and cDNA reads</option>
+                <option value="list_paired" >Paired collection of barcode and cDNA reads</option>
+            </param>
+            <when value="repeat">
+                <param format="fastq,fasta,fastq.gz,fastqsanger.gz" name="input1" type="data"  multiple="true"
+                label="RNA-Seq FASTQ/FASTA file, Barcode reads" />
+                <param format="fastq,fasta,fastq.gz,fastqsanger.gz" name="input2" type="data"  multiple="true"
+                label="RNA-Seq FASTQ/FASTA file, cDNA reads"/>
+            </when>
+            <when value="list_paired">
+                <param name="input_collection" collection_type="paired" type="data_collection" format="fastq,fasta,fastq.gz,fastqsanger.gz" label="Collection of Pairs" />
+            </when>
+        </conditional>
+    </xml>
+    <xml name="input_selection_smart_seq">
+        <conditional name="input_types_smart_seq" >
+            <param name="use" type="select" label="Input Type" >
+                <option value="list_single_end" >Single-end FASTQ collection</option>
+                <option value="list_paired_end" >Paired FASTQ collection</option>
+            </param>
+            <when value="list_single_end">
+                <param name="single_end_collection" collection_type="list" type="data_collection" format="fastq,fasta,fastq.gz,fastqsanger.gz" label="List of single-end FASTQ files" />
+            </when>
+            <when value="list_paired_end">
+                <param name="paired_end_collection" collection_type="list:paired" type="data_collection" format="fastq,fasta,fastq.gz,fastqsanger.gz" label="List of paired-end FASTQ files" />
+            </when>
+        </conditional>
+    </xml>
+    <xml name="umidedup_options">
+        <option value="1MM_All" selected="true">All</option>
+        <option value="1MM_Directional" >Directional</option>
+    </xml>
+    <xml name="anchor_types">
+        <option value="0">Read start</option>
+        <option value="1">Read end</option>
+        <option value="2">Adapter start</option>
+        <option value="3">Adapter end</option>
+    </xml>
+    <xml name="cb_match_wl_common">
+        <option value="Exact" >Exact</option>
+        <option value="1MM" >Single match</option>
+    </xml>
+    <xml name="cb_match_wl_cellranger">
+        <option value="1MM_multi" selected="true" >Multiple matches (CellRanger 2)</option>
+        <option value="1MM_multi_pseudocounts" >Multiple matches (CellRanger 3)</option>
+    </xml>
 </macros>
diff -r e132e7d02a3e -r 7ed2edc1337f test-data/indrop.R1.fastq.gz
Binary file test-data/indrop.R1.fastq.gz has changed
diff -r e132e7d02a3e -r 7ed2edc1337f test-data/indrop.R2.fastq.gz
Binary file test-data/indrop.R2.fastq.gz has changed
diff -r e132e7d02a3e -r 7ed2edc1337f test-data/indrop.barcodes1.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/indrop.barcodes1.txt	Fri Jan 15 17:38:35 2021 +0000
@@ -0,0 +1,384 @@
+
GTTTGTTT
+
ACCGTGTTT
+
GATAGTGTTT
+
TGAGGCGGTTT
+
GATCGTTT
+
ATCACGTTT
+
GATGTAGTTT
+
TGACACAGTTT
+
CTTTCTTT
+
AGCCTCTTT
+
GACGGGCTTT
+
TGAATGACTTT
+
TGCTATTT
+
ACGGAATTT
+
GACATTTGTT
+
TGAGTTCTGTT
+
CCGCTGTT
+
AAAATCGTT
+
GATTGGCGTT
+
TGACTACCGTT
+
GTAACGTT
+
AACTGAGTT
+
GAAGGCAGTT
+
TGACTGTTCTT
+
ACCTTCTT
+
AATACTCTT
+
GAGAAGGCTT
+
TGAAGGAGCTT
+
TCATCCTT
+
AAGCGCCTT
+
GAGGTCCCTT
+
TGACAATACTT
+
TTGGACTT
+
ACCCGACTT
+
GATCTCACTT
+
TGAGACAACTT
+
TCCTTATT
+
AGATGTATT
+
GAGTCATATT
+
TGAGCCGGATT
+
CTTCGATT
+
AGAACGATT
+
GAACGCCATT
+
TGACATACATT
+
ATCTTTGT
+
ACTACTTGT
+
GAAAGATTGT
+
TGACTTGGTGT
+
TTATCTGT
+
ATGGCCTGT
+
GACGAGATGT
+
TGAGTCCATGT
+
GGGTTGGT
+
ACCCTTGGT
+
GATCTGTGGT
+
TGAAAACTGGT
+
GCATGGGT
+
AAATCGGGT
+
GATTGAGGGT
+
TGATCGACGGT
+
CTTCAGGT
+
AGGGAAGGT
+
GAGAATTCGT
+
TGAGTCGTCGT
+
TTAAGCGT
+
ATGCTCCGT
+
GAACTGCCGT
+
TGATAACCCGT
+
CCAACCGT
+
AGTTTACGT
+
GACAATTAGT
+
TGACGGGTAGT
+
GCTCTAGT
+
AGTATGAGT
+
GATTCCGAGT
+
TGACCAGCAGT
+
TGACCAGT
+
AAGCGAAGT
+
GATGGTTTCT
+
TGACACTTTCT
+
AAGCTTCT
+
ATTGATTCT
+
GATGAGGTCT
+
TGACCTCGTCT
+
GTCTCTCT
+
AGCACCTCT
+
GAGCGTTGCT
+
TGATACGTGCT
+
GGCATGCT
+
AAGATGGCT
+
GAACCACGCT
+
TGAGTGGAGCT
+
TCGAAGCT
+
ATGTGTCCT
+
GACGACTCCT
+
TGATATTGCCT
+
TTCGGCCT
+
AAAACGCCT
+
GACAGTCCCT
+
TGATTTACCCT
+
GCTTACCT
+
AATATACCT
+
GAGGGAACCT
+
TGACCATTACT
+
TAACTACT
+
ATTGTGACT
+
GACACGGACT
+
TGAGAAGCACT
+
GTTCAACT
+
ACCGCAACT
+
GATACAAACT
+
TGACCTGTTAT
+
TAGCTTAT
+
AGGGTGTAT
+
GAGAGAGTAT
+
TGAACATCTAT
+
TTGCATAT
+
AACCCATAT
+
GACGATTGAT
+
TGATCCCTGAT
+
GGTGGGAT
+
AATGCGGAT
+
GAACTAGGAT
+
TGAAGCGCGAT
+
GTTACGAT
+
AGCCAAGAT
+
GAGTTGTCAT
+
TGACAAGTCAT
+
ATATGCAT
+
ACTCCGCAT
+
GAGAGCCCAT
+
TGACAGACCAT
+
CGGCACAT
+
AAAGGTAAT
+
GACGAATAAT
+
TGACTCAGAAT
+
ACTTCAAT
+
AGGGCCAAT
+
GAATGGAAAT
+
TGACAACAAAT
+
AATGTTTG
+
ACTGCGTTG
+
GAATTCCTTG
+
TGAAACCCTTG
+
GTACCTTG
+
ACTAGATTG
+
GAGAGAATTG
+
TGAAGGTTGTG
+
TACTTGTG
+
AGGTTAGTG
+
GAATCAAGTG
+
TGACGAGTCTG
+
CCCATCTG
+
AGCAACCTG
+
GATTAAACTG
+
TGATCGTCATG
+
GCAGCATG
+
AAATGAATG
+
GACCCGAATG
+
TGATAGAAATG
+
AGAGGTGG
+
ACAACGTGG
+
GACTGTCTGG
+
TGATTCGCTGG
+
TCATATGG
+
AGTGGATGG
+
GAGACGATGG
+
TGAATGCATGG
+
CTTACGGG
+
AAGAACGGG
+
GACAAGAGGG
+
TGAAAACAGGG
+
TGCAAGGG
+
AAAAGTCGG
+
GAGATCTCGG
+
TGACGTATCGG
+
ATTTCCGG
+
AAGCTACGG
+
GATAAGACGG
+
TGAAGCGTAGG
+
TAAATAGG
+
ATCATGAGG
+
GATGTAAAGG
+
TGAGACAAAGG
+
GAGTTTCG
+
ATCGGTTCG
+
GACTTCTTCG
+
TGAAAATGTCG
+
TAGCCTCG
+
ATTGGATCG
+
GATGCCATCG
+
TGATTAGTCCG
+
TACAGCCG
+
AACTCACCG
+
GATCGGTACG
+
TGAATTCGACG
+
GTTGCACG
+
AATCCCACG
+
GATGTACACG
+
TGAAACACACG
+
AGGCAACG
+
AACGAAACG
+
GAGGCGTTAG
+
TGATCCCGTAG
+
TAGTCTAG
+
ACGTGCTAG
+
GACCTACTAG
+
TGATGTTTGAG
+
GATGTGAG
+
ATTTGGGAG
+
GATGGAGGAG
+
TGATCACCGAG
+
CTATAGAG
+
AACGCAGAG
+
GACCCTTCAG
+
TGAACGCTCAG
+
CATCGCAG
+
ATCTAGCAG
+
GATGTTCCAG
+
TGAATACCCAG
+
TGCGACAG
+
AGGTCACAG
+
GATTTAACAG
+
TGACACAACAG
+
GGAAACAG
+
AGGCCTAAG
+
GAACACTAAG
+
TGACGTAGAAG
+
GGATAAAG
+
AAGTGAAAG
+
GAGTCCAAAG
+
TGATGTCTTTC
+
CGTATTTC
+
AATATCTTC
+
GATGGGATTC
+
TGAGCGCATTC
+
TTTGTGTC
+
ACAGGTGTC
+
GACGCTAGTC
+
TGAGGTTTCTC
+
TTCCGCTC
+
ACACTCCTC
+
GATGACCCTC
+
TGAGTACACTC
+
TGCGTATC
+
ATCTGCATC
+
GATAACCATC
+
TGAGCCACATC
+
CTTTAATC
+
AAAGTAATC
+
GATCCCAATC
+
TGAGGGAAATC
+
CAGTTTGC
+
ACTGAGTGC
+
GAAGTGATGC
+
TGACTCGATGC
+
GCTTTGGC
+
AATGTTGGC
+
GATACCAGGC
+
TGACACAAGGC
+
ATCAGCGC
+
AGTTACCGC
+
GAGAATACGC
+
TGATTGCACGC
+
AACTTAGC
+
AACGGTAGC
+
GACCCATAGC
+
TGACTACGAGC
+
GGAGAAGC
+
ATTCGTTCC
+
GAGGACTTCC
+
TGATCCAGTCC
+
AGAAGTCC
+
AAAACCTCC
+
GACTTACTCC
+
TGAAACAATCC
+
ACCTTGCC
+
AGAAGTGCC
+
GAATTGGGCC
+
TGATTGTCGCC
+
TTATAGCC
+
AGCAAAGCC
+
GACATCTCCC
+
TGAGTAATCCC
+
TGATGCCC
+
AAATGACCC
+
GACTAGACCC
+
TGAGATTTACC
+
TGGCTACC
+
ATTAGGACC
+
GAGAAAGACC
+
TGATCGACACC
+
GTGTAACC
+
ACCCTAACC
+
GATCTCAACC
+
TGATTGTTTAC
+
CGGCTTAC
+
ACAGATTAC
+
GAAAGCGTAC
+
TGAGTCCGTAC
+
ACGTATAC
+
AGTCAATAC
+
GACTCTTGAC
+
TGAGGTCTGAC
+
AACCTGAC
+
ATAGTGGAC
+
GATGACGGAC
+
TGAGCAAGGAC
+
GATTAGAC
+
ATTCCAGAC
+
GAAGGAAGAC
+
TGAGAGTTCAC
+
TGCCTCAC
+
ATTTATCAC
+
GAATGGGCAC
+
TGACTTCGCAC
+
AGCACCAC
+
AGGTGACAC
+
GACCTGACAC
+
TGACTAGTAAC
+
AGCAGAAC
+
ACGGACAAC
+
GATCGGTTTA
+
TGAAGAAGTTA
+
GGCCCTTA
+
AATGGATTA
+
GACCACATTA
+
TGAGCAGGGTA
+
GAGCGGTA
+
ACTTAGGTA
+
GAGGGAGGTA
+
TGACTCGCGTA
+
CGAACGTA
+
AATTCAGTA
+
GATTGATCTA
+
TGATGTGGCTA
+
ATCCGCTA
+
AAAAGCCTA
+
GACGTACCTA
+
TGAGGCTACTA
+
AGAGACTA
+
ACGTGGATA
+
GAGACAGATA
+
TGATTCACATA
+
CGCTAATA
+
ACCATTTGA
+
GACGCCTTGA
+
TGAGAGGCTGA
+
TGGTATGA
+
AAGCTATGA
+
GATGAAATGA
+
TGACTTCTGGA
+
TCCAGGGA
+
AGTGTCGGA
+
GAACAGCGGA
+
TGAATATAGGA
+
GCAGTCGA
+
AAAACTCGA
+
GAGATTGCGA
+
TGAATGACCGA
+
ACCCACGA
+
AGGGAACGA
+
GAAGTTTAGA
+
TGAGGAATAGA
+
AAATCAGA
+
AGTCAAAGA
+
GACCTATTCA
+
TGAAGGATTCA
+
CGACGTCA
+
ACGCTCTCA
+
GATGTGCTCA
+
TGACTGGTGCA
+
TACCGGCA
+
ATAGTCGCA
+
GACGTCAGCA
+
TGAATGAAGCA
+
CCCAAGCA
+
AGCTTTCCA
+
GATCCGTCCA
+
TGAACTAGCCA
+
AATTCCCA
+
AAGACACCA
+
GAGTTAACCA
+
TGATGATAACA
diff -r e132e7d02a3e -r 7ed2edc1337f test-data/indrop.barcodes2.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/indrop.barcodes2.txt	Fri Jan 15 17:38:35 2021 +0000
@@ -0,0 +1,384 @@
+
GTTTGTTT
+
CCGTGTTT
+
TAGTGTTT
+
GGCGGTTT
+
GATCGTTT
+
TCACGTTT
+
TGTAGTTT
+
CACAGTTT
+
CTTTCTTT
+
GCCTCTTT
+
CGGGCTTT
+
ATGACTTT
+
TGCTATTT
+
CGGAATTT
+
CATTTGTT
+
GTTCTGTT
+
CCGCTGTT
+
AAATCGTT
+
TTGGCGTT
+
CTACCGTT
+
GTAACGTT
+
ACTGAGTT
+
AGGCAGTT
+
CTGTTCTT
+
ACCTTCTT
+
ATACTCTT
+
GAAGGCTT
+
AGGAGCTT
+
TCATCCTT
+
AGCGCCTT
+
GGTCCCTT
+
CAATACTT
+
TTGGACTT
+
CCCGACTT
+
TCTCACTT
+
GACAACTT
+
TCCTTATT
+
GATGTATT
+
GTCATATT
+
GCCGGATT
+
CTTCGATT
+
GAACGATT
+
ACGCCATT
+
CATACATT
+
ATCTTTGT
+
CTACTTGT
+
AAGATTGT
+
CTTGGTGT
+
TTATCTGT
+
TGGCCTGT
+
CGAGATGT
+
GTCCATGT
+
GGGTTGGT
+
CCCTTGGT
+
TCTGTGGT
+
AAACTGGT
+
GCATGGGT
+
AATCGGGT
+
TTGAGGGT
+
TCGACGGT
+
CTTCAGGT
+
GGGAAGGT
+
GAATTCGT
+
GTCGTCGT
+
TTAAGCGT
+
TGCTCCGT
+
ACTGCCGT
+
TAACCCGT
+
CCAACCGT
+
GTTTACGT
+
CAATTAGT
+
CGGGTAGT
+
GCTCTAGT
+
GTATGAGT
+
TTCCGAGT
+
CCAGCAGT
+
TGACCAGT
+
AGCGAAGT
+
TGGTTTCT
+
CACTTTCT
+
AAGCTTCT
+
TTGATTCT
+
TGAGGTCT
+
CCTCGTCT
+
GTCTCTCT
+
GCACCTCT
+
GCGTTGCT
+
TACGTGCT
+
GGCATGCT
+
AGATGGCT
+
ACCACGCT
+
GTGGAGCT
+
TCGAAGCT
+
TGTGTCCT
+
CGACTCCT
+
TATTGCCT
+
TTCGGCCT
+
AAACGCCT
+
CAGTCCCT
+
TTTACCCT
+
GCTTACCT
+
ATATACCT
+
GGGAACCT
+
CCATTACT
+
TAACTACT
+
TTGTGACT
+
CACGGACT
+
GAAGCACT
+
GTTCAACT
+
CCGCAACT
+
TACAAACT
+
CCTGTTAT
+
TAGCTTAT
+
GGGTGTAT
+
GAGAGTAT
+
ACATCTAT
+
TTGCATAT
+
ACCCATAT
+
CGATTGAT
+
TCCCTGAT
+
GGTGGGAT
+
ATGCGGAT
+
ACTAGGAT
+
AGCGCGAT
+
GTTACGAT
+
GCCAAGAT
+
GTTGTCAT
+
CAAGTCAT
+
ATATGCAT
+
CTCCGCAT
+
GAGCCCAT
+
CAGACCAT
+
CGGCACAT
+
AAGGTAAT
+
CGAATAAT
+
CTCAGAAT
+
ACTTCAAT
+
GGGCCAAT
+
ATGGAAAT
+
CAACAAAT
+
AATGTTTG
+
CTGCGTTG
+
ATTCCTTG
+
AACCCTTG
+
GTACCTTG
+
CTAGATTG
+
GAGAATTG
+
AGGTTGTG
+
TACTTGTG
+
GGTTAGTG
+
ATCAAGTG
+
CGAGTCTG
+
CCCATCTG
+
GCAACCTG
+
TTAAACTG
+
TCGTCATG
+
GCAGCATG
+
AATGAATG
+
CCCGAATG
+
TAGAAATG
+
AGAGGTGG
+
CAACGTGG
+
CTGTCTGG
+
TTCGCTGG
+
TCATATGG
+
GTGGATGG
+
GACGATGG
+
ATGCATGG
+
CTTACGGG
+
AGAACGGG
+
CAAGAGGG
+
AAACAGGG
+
TGCAAGGG
+
AAAGTCGG
+
GATCTCGG
+
CGTATCGG
+
ATTTCCGG
+
AGCTACGG
+
TAAGACGG
+
AGCGTAGG
+
TAAATAGG
+
TCATGAGG
+
TGTAAAGG
+
GACAAAGG
+
GAGTTTCG
+
TCGGTTCG
+
CTTCTTCG
+
AAATGTCG
+
TAGCCTCG
+
TTGGATCG
+
TGCCATCG
+
TTAGTCCG
+
TACAGCCG
+
ACTCACCG
+
TCGGTACG
+
ATTCGACG
+
GTTGCACG
+
ATCCCACG
+
TGTACACG
+
AACACACG
+
AGGCAACG
+
ACGAAACG
+
GGCGTTAG
+
TCCCGTAG
+
TAGTCTAG
+
CGTGCTAG
+
CCTACTAG
+
TGTTTGAG
+
GATGTGAG
+
TTTGGGAG
+
TGGAGGAG
+
TCACCGAG
+
CTATAGAG
+
ACGCAGAG
+
CCCTTCAG
+
ACGCTCAG
+
CATCGCAG
+
TCTAGCAG
+
TGTTCCAG
+
ATACCCAG
+
TGCGACAG
+
GGTCACAG
+
TTTAACAG
+
CACAACAG
+
GGAAACAG
+
GGCCTAAG
+
ACACTAAG
+
CGTAGAAG
+
GGATAAAG
+
AGTGAAAG
+
GTCCAAAG
+
TGTCTTTC
+
CGTATTTC
+
ATATCTTC
+
TGGGATTC
+
GCGCATTC
+
TTTGTGTC
+
CAGGTGTC
+
CGCTAGTC
+
GGTTTCTC
+
TTCCGCTC
+
CACTCCTC
+
TGACCCTC
+
GTACACTC
+
TGCGTATC
+
TCTGCATC
+
TAACCATC
+
GCCACATC
+
CTTTAATC
+
AAGTAATC
+
TCCCAATC
+
GGGAAATC
+
CAGTTTGC
+
CTGAGTGC
+
AGTGATGC
+
CTCGATGC
+
GCTTTGGC
+
ATGTTGGC
+
TACCAGGC
+
CACAAGGC
+
ATCAGCGC
+
GTTACCGC
+
GAATACGC
+
TTGCACGC
+
AACTTAGC
+
ACGGTAGC
+
CCCATAGC
+
CTACGAGC
+
GGAGAAGC
+
TTCGTTCC
+
GGACTTCC
+
TCCAGTCC
+
AGAAGTCC
+
AAACCTCC
+
CTTACTCC
+
AACAATCC
+
ACCTTGCC
+
GAAGTGCC
+
ATTGGGCC
+
TTGTCGCC
+
TTATAGCC
+
GCAAAGCC
+
CATCTCCC
+
GTAATCCC
+
TGATGCCC
+
AATGACCC
+
CTAGACCC
+
GATTTACC
+
TGGCTACC
+
TTAGGACC
+
GAAAGACC
+
TCGACACC
+
GTGTAACC
+
CCCTAACC
+
TCTCAACC
+
TTGTTTAC
+
CGGCTTAC
+
CAGATTAC
+
AAGCGTAC
+
GTCCGTAC
+
ACGTATAC
+
GTCAATAC
+
CTCTTGAC
+
GGTCTGAC
+
AACCTGAC
+
TAGTGGAC
+
TGACGGAC
+
GCAAGGAC
+
GATTAGAC
+
TTCCAGAC
+
AGGAAGAC
+
GAGTTCAC
+
TGCCTCAC
+
TTTATCAC
+
ATGGGCAC
+
CTTCGCAC
+
AGCACCAC
+
GGTGACAC
+
CCTGACAC
+
CTAGTAAC
+
AGCAGAAC
+
CGGACAAC
+
TCGGTTTA
+
AGAAGTTA
+
GGCCCTTA
+
ATGGATTA
+
CCACATTA
+
GCAGGGTA
+
GAGCGGTA
+
CTTAGGTA
+
GGGAGGTA
+
CTCGCGTA
+
CGAACGTA
+
ATTCAGTA
+
TTGATCTA
+
TGTGGCTA
+
ATCCGCTA
+
AAAGCCTA
+
CGTACCTA
+
GGCTACTA
+
AGAGACTA
+
CGTGGATA
+
GACAGATA
+
TTCACATA
+
CGCTAATA
+
CCATTTGA
+
CGCCTTGA
+
GAGGCTGA
+
TGGTATGA
+
AGCTATGA
+
TGAAATGA
+
CTTCTGGA
+
TCCAGGGA
+
GTGTCGGA
+
ACAGCGGA
+
ATATAGGA
+
GCAGTCGA
+
AAACTCGA
+
GATTGCGA
+
ATGACCGA
+
ACCCACGA
+
GGGAACGA
+
AGTTTAGA
+
GGAATAGA
+
AAATCAGA
+
GTCAAAGA
+
CCTATTCA
+
AGGATTCA
+
CGACGTCA
+
CGCTCTCA
+
TGTGCTCA
+
CTGGTGCA
+
TACCGGCA
+
TAGTCGCA
+
CGTCAGCA
+
ATGAAGCA
+
CCCAAGCA
+
GCTTTCCA
+
TCCGTCCA
+
ACTAGCCA
+
AATTCCCA
+
AGACACCA
+
GTTAACCA
+
TGATAACA
diff -r e132e7d02a3e -r 7ed2edc1337f test-data/smartseq.cellids.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/smartseq.cellids.txt	Fri Jan 15 17:38:35 2021 +0000
@@ -0,0 +1,9 @@
+MGH26_A01
+MGH26_A02
+MGH26_A03
+CSC6_D01
+CSC6_D02
+CSC6_D03
+CSC8_H01
+CSC8_H02
+CSC8_H03
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