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Changeset 2:26e6c9362b7b (2024-09-27)

Previous changeset 1:34553d0caa5e (2020-01-19)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5

modified:
macros.xml
poretools_squiggle.xml
test-data/poretools-tabular-out1.tabular
test-data/poretools-tabular-out2.tabular
test-data/poretools-tabular-out3.tabular
test-data/poretools-tabular-out4.tabular
test-data/poretools-winner-out1.tabular
test-data/poretools-winner-out2.tabular

removed:
test-data/poretools-times-out2.tabular
test-data/poretools-times-out3.tabular
test-data/poretools-times-out4.tabular
test-data/poretools-times-out5.tabular

diff -r 34553d0caa5e -r 26e6c9362b7b macros.xml
--- a/macros.xml Sun Jan 19 09:09:16 2020 -0500
+++ b/macros.xml Fri Sep 27 07:56:56 2024 +0000

[

@@ -6,7 +6,13 @@
             <yield />
         </requirements>
     </xml>
+    <xml name="bio_tools">
+        <xrefs>
+            <xref type="bio.tools">poretools</xref>
+        </xrefs>
+    </xml>
     <token name="@VERSION@">0.6.1a1</token>
+    <token name="@PROFILE@">23.1</token>
     <xml name="citations">
         <citations>
             <citation type="doi">10.1093/bioinformatics/btu555</citation>
@@ -19,7 +25,7 @@
             <option value="svg">SVG</option>
             <yield />
         </param>
-        <param name="theme_bw" argument="--theme-bw" type="boolean" truevalue="--theme-bw" falsevalue="" label="Use a monochrome color scheme" />
+        <param argument="--theme-bw" type="boolean" truevalue="--theme-bw" falsevalue="" label="Use a monochrome color scheme" />
     </xml>
     <xml name="image_output">
         <data name="output" format="png">
@@ -31,7 +37,7 @@
         </data>
     </xml>
     <xml name="stat_options">
-        <param name="type" argument="--type" type="select" label="Filter by type of read">
+        <param argument="--type" type="select" label="Filter by type of read">
             <option value="all" selected="true">All</option>
             <option value="fwd">Forward reads</option>
             <option value="rev">Reverse reads</option>
@@ -44,9 +50,8 @@
         <param name="input" ftype="fast5.tar" value="poretools-in1.tar.bz2" />
     </xml>
     <xml name="length_options">
-        <param name="min_length" argument="--min-length" type="integer" value="0" label="Minimum read length" />
-        <param name="max_length" argument="--max-length" type="integer" value="1000000000" label="Maximum read length" />
+        <param argument="--min-length" type="integer" value="0" label="Minimum read length" />
+        <param argument="--max-length" type="integer" value="1000000000" label="Maximum read length" />
     </xml>
     <token name="@MPLBACKEND@"><![CDATA[export MPLBACKEND="agg" &&]]></token>
-    <token name="@profile@">18.09</token>
</macros>

diff -r 34553d0caa5e -r 26e6c9362b7b poretools_squiggle.xml
--- a/poretools_squiggle.xml Sun Jan 19 09:09:16 2020 -0500
+++ b/poretools_squiggle.xml Fri Sep 27 07:56:56 2024 +0000

[

@@ -1,9 +1,9 @@
-<?xml version="1.0"?>
-<tool id="poretools_squiggle" name="Plot signals" version="@VERSION@.1" profile="@profile@">
+<tool id="poretools_squiggle" name="Plot signals" version="@VERSION@.1" profile="@PROFILE@">
     <description>for nanopore reads</description>
     <macros>
         <import>macros.xml</import>
     </macros>
+    <expand macro="bio_tools"/>
     <expand macro="requirements" />
     <command detect_errors="aggressive">
     <![CDATA[
@@ -14,7 +14,7 @@
     <inputs>
         <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" />
         <expand macro="plot_options" />
-        <param name="num_facets" argument="--num-facets" type="integer" value="6" label="Number of plot facets" />
+        <param argument="--num-facets" type="integer" value="6" label="Number of plot facets" />
     </inputs>
     <outputs>
         <data format="txt" name="output">

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-tabular-out1.tabular
--- a/test-data/poretools-tabular-out1.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-tabular-out1.tabular Fri Sep 27 07:56:56 2024 +0000

b'@@ -1,13 +1,5 @@\n length\tname\tsequence\tquals\n-202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n-159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n 212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n-413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n-376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n 373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n-602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n 657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n'

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-tabular-out2.tabular
--- a/test-data/poretools-tabular-out2.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-tabular-out2.tabular Fri Sep 27 07:56:56 2024 +0000

b'@@ -1,13 +1,5 @@\n length\tname\tsequence\tquals\n-202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n 159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n-212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n-413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n 376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n-373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t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n 602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n-657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n'

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-tabular-out3.tabular
--- a/test-data/poretools-tabular-out3.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-tabular-out3.tabular Fri Sep 27 07:56:56 2024 +0000

b'@@ -1,13 +1,5 @@\n length\tname\tsequence\tquals\n 202\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tGAAATTGCTGGTTGCTCCCCGAGGGGCCTATAAACAATCGGATAAGGGTCTAAGTCAGGGCGAAAAAGATTTGGGGGCTCCTAATCTCCGATAATGAGTGCCGCAACATACGGATAGTACCTTTATGCGTAACCGCTCCATACGACAAATAATTATTTATATACGGTACCTACGGAACCAAAATTGACAAGTTCGTACTTTT\t)))))+*,,*,*--,-,..---./0..++++-/-//**)*)))*,,.///---**)))*))+/,//-.,00.--)***+*+))),)*)))+).*----.--**..,-,**,**,+++++,+*+*)**+,,,**((+,,+,))()**+,++,+**+--,)(((((()(((((()(())))+,//),+--.+(())(((()(((\n-159\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tATCGACCATATTGGCTTTTTGGTTATCCTGGTCTACCTCTTGTTGTCTTGGTGGGTGCCAACAGCTATGCATCTGTTGCATCAATCGTGACGGGAAACGAGAGGACAATTTCCCGGGTTAAACATGCCGATTGTCAGCCGCGGGGGCTGGGGAGGTTCC\t""$"#$$&%$(&$"#$,<0-+(-\'%(#$%$&(&%$$$%\'-,(0\'$)%(&$"\'"#"\'"$#$"&#&$##&%$%\'%&\'00,&\'%#$##$$&"####%$\'#%(\'\'$$"$"($/=,)\'\'#$$\'%%\'$\'$)$%&$%()\'\'%%"%&%%%(*#(%"$&&(&##&)&$\n-212\t@b7b29e94-0894-415c-87c4-a809bc8e8bdb_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read95_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5\tCTTCTGTTGTGGTGCTCTTGCTCCCCAGGGGCCTATAAACGTGCACATAGGGTCTAAGTCAGCGAAAAAGATTTGAGGCTCCCGTATAGATAATGGATCCCCTCAGCCCTAGCTGACCGTCATCCGTAACGCCTCCATACATAAATAATTATTTAGCTCTAGTACACCCAGGCGGATCGCTTCTGGTTTTATATTTCTTGATTACTGATGCA\t"#\')-,;42;7<8544/22.**)-(*()*(\')%%&\'\'-*0..+)%%$"\'%\'*/\'%%&$&$%&##$%%(%)%/4)&#&\'#$#$#$*#$"#&$$#\'&$#*$%&##(&"*%)%&$&&&**(&(%%(%%),-%&%\')*/,,(((%$%\'$##","#,2\'\'#$$(\'(\'*()(+)\'\'&*)%$\'(%#&%4.01-17;2&&$\'12\'\')"%)&#$#"$)&\'#\n 413\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tGCTTCTTCTGCTTATATTGCTTAGAAGGAAATACGAGAGGAGAAAGAGTAGATGATGATAAAGGGTCGACTAATTATTTCCGAAGTTTGTTAAAGTCGAAATCGCTTCGAATTTGAAATTGTTGCTGACGCAAGTTAGCGATGCGCGATCCCAGGAGTATAGGGGTTGAAAACGGTTCCATTTGATAAGGTTTTCCATTAATGACGTCACGTTGTTTGGTATTTCCTTCTATTTTCTCCGAAGCGCCCCTCTCTCTCTCATCTCACGTCAGATTCAATTTTATTACAACAAATGTGAAAAGTGGGTTCGCAGAGGTCGCTTAAGCCATTTTCTTAGATACAGCTTGAAAACGAATCTACAGAACAAATCTCCTGCCATTACACTCAGAGTCATGACGGTCGTGTTTATAGAGT\t))****-+.,,,++,,-,...-*++/,0.1,++,,..-0/)+-/,----,+,,,-,--,-+****+**+**+-.-.0500-.0-,,+*,.,,,,+-*+./.++,.////10+/,/03/10/.0..-*--./0001.--.++../////0--,./0//****.//..--).0-,-*,,+*)10,+-+++,,./+,+++*)+-++++**)))*))*)+*+,*,.0,.+,****,--)))*)()+(*))))))))**,,,,*))((*))**))(*++(+*-,-,())))**+-0-*****./,)****-0/..,-,,.--,-+,****-./680/--*)+000/.//-,/03/..0--.*,++*+*)**)*)*++++.//0/,++**+))*+++*)))**++-,-,3520...**)\n-376\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tACTCTAACTCAGGCTGGTATCTGAGTGTAATGGCGCAGTTGTCTGTAGGGTCGTTCAAGCTGTATCAAGAAATGAGTAAGCGAAAACCTGCGAGCCGATTTTCGCTTTGTTTAGTAAGGTTAGTGACGTGAGGGTGAGAGAGAGAGAGAGCGTTCGGAGAAAATAGAAGGAGAACCCAAACAACGTGACGTCATTGATGAAAACCTTATCGGGAACCCGTTTCAACCCCTATACTCCTCGGCGCGTAGGCTAACTGCGTAGCAACATTCAATTCAGCAGTTTTCCTGTCAGCGACTTCGGAAGCTTAGTCAACAGTGTTTATCAGCTCCTCTTCCTCTCGTATTTCGTTCAAGCAATATAGCAGAGGCGCCTGTCC\t"$###$$$#%#$"###$\'###$"&\'.)*(*+,-)$%$&/&$1(*),&&%%(\'$1)%##%%))+((%#$+&*%&&%$%%\'(*,--+()$+-+),#*\'%\')4:*\'$$*:,\')\'#%#%$&%$+++$*%$\'&&)&&&&\')\'+*-,+*\'&*$)%\'&&\'\')\'*)+,--\'&&\'$)(2&$)%%&(&&$&%#%%)$%&&((*(+$\')(&(%##\'+,+,)\'((%%$%(*02*\')&))+\'"%$%%&\'$#&%$$(#$&$%%##\'&&,*))*((&%#(%*,(*(**$\'()%#*=?/-&*)*(##&%\'&+,(+*,)%\'&*+*+(\'%($#\'#*2+(\'%$$$&&%#$(+((\'\'\'(\')\'+30,$)*\'((*(\'&&%#$$%%&%\'\'$\'$%&&1/$\n-373\t@935c5941-a78e-4959-923e-f71157063e92_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch128_read430_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5\tCATTCTTTGGTGCTGATCCTGCGAGGAGAGGGGGAGGGGA'..b'GCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT\t))))+-*)*)+**++**+)*)*,-,,+++-+++/./20.//.+...*.,-,--+***,+++++**+++,.//.,++,.54.320/--.,-.++-.,,.-++++*,+,-./0/.0000/..0-,----/.----,+++++,00.//./.++*+//0.//00/285/+*+**+-,,,,,-,**,,,+--00*0/)*.,+,+.,,,+++,,-+*,*+-+,+,--..,+****)**+++,+++***)*+)**)-,.20//02-))**++*+**+*+**-/0./-,,,--))*))++)+*++..,,+-./.+++++,++++,025-,5.-/,-//0/---,,.43430,,-+,+,.,/..-.+***)))))..//-+,***)))+)++))),***)**))(())--.-())((,((*(*(((*+-0/---,*/**)*,-/.0.-,.,++)*,+,,-,--,-,+++**))**,+*+*))))*))))*))+(+,-+,**)))*)*)))*++((*+****,,,---+*,+*+,0,++*)))(,03.--1+***-*-)*)+****))))+))+***+21--/.-)))**)*)***-10--,-,,+*+)))+,..,,/,,,,-,+)())***)())*++++,+)))***+*))((,+(((())(*)()()***,,---,,,+)((((,()**.*(***+)))\n-602\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC\t####"##&%##$#+%%##%#\'%#$%$)-)\'($%&&((,()+-\'&\'(($%#(&%1-$##$\'$#%#\'08+\'$$%#"&$#&.+$%*#(\'%%##$$&&)))$(\'\'($((\'##+)6<4)\'(*()\',,(.\'&%&\'*($%&%##-,(\'#$$"$$\'04)&%$#(\'&%%%%\'$##(%%$*$\'$#\'\'\'&),%$%$%$%$$$*+%$%(%%&&\'\'%%(&%1-(%$"#%&&+**-,\'&\'\'((&#\'#$&%\'&%\'#(&+#)*))//+&&%$%$%$%&)&&$),-*&%$$$&)%$#$\'&+(#%\'&\'\'$##(2(%&$%$..(\'($&%%*.+\'$%%%),\')\'()%*\'&)%#&##"###&%%%\'*$\'++($$%#\'%%"($)&#$%\'\'&(**)$+*&)3-&%$$$#$)&$%\'%)*\')&&$%%&$#&($#+0&$"##%###\'%(%\'&(%$%(%#&$%$&$&$#%###$$&$%&+&&$$%&$$\'(\'&(&&&#%$$\'%%&\'%\'"%###$$#-)%#$#%\'%%$&\'\'\'"&%$$\'%$$)#(-*&)+09))\'#\'#%&%&$$(&%%%)(+()&%$(\'"""$"#&#\'$$\'./(*&&(\'%$#$$##\'%$&$&%$"&"))##$#\'$##"$)\'$\n-657\t@2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5\tGTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT\t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n'

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-tabular-out4.tabular
--- a/test-data/poretools-tabular-out4.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-tabular-out4.tabular Fri Sep 27 07:56:56 2024 +0000

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-times-out2.tabular
--- a/test-data/poretools-times-out2.tabular Sun Jan 19 09:09:16 2020 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-channel filename read_length exp_starttime unix_timestamp duration unix_timestamp_end iso_timestamp day hour minute
-128 .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read95_strand.fast5 202 1457127309 1457127626 1 1457127627 2016-03-04T21:40:26+0000 04 21 40
-128 .poretools_tmp/test-data/2016_3_4_3507_1_ch128_read430_strand.fast5 413 1457127309 1457129549 4 1457129553 2016-03-04T22:12:29+0000 04 22 12
-126 .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read1377_strand.fast5 523 1457127309 1457148908 5 1457148913 2016-03-05T03:35:08+0000 05 03 35
-126 .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5 692 1457127309 1457129771 6 1457129777 2016-03-04T22:16:11+0000 04 22 16

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-times-out3.tabular
--- a/test-data/poretools-times-out3.tabular Sun Jan 19 09:09:16 2020 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-times-out4.tabular
--- a/test-data/poretools-times-out4.tabular Sun Jan 19 09:09:16 2020 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-times-out5.tabular
--- a/test-data/poretools-times-out5.tabular Sun Jan 19 09:09:16 2020 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-winner-out1.tabular
--- a/test-data/poretools-winner-out1.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-winner-out1.tabular Fri Sep 27 07:56:56 2024 +0000

@@ -1,2 +1,2 @@
->2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5
-CATGTTTCTGCTGATATTGCTAATGGCTGAACTGGAAATAAGGATCCGTTGCTTGCCAACAACTATACTGCGTGGTATTTTCCCAGTGGAAAGATCGGGAACCTTTGATCTTCAATATAGTTACAATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTTGGGTATAACAGGATGAGGAGGACGATTCGAAGTCACGATCATGCGCCCAAGTCAGAATGACTCCACACTACTCCTCCTCAGGACCATTTATAAATAAACAGTGATCAAGATTCCAACAATTAAGATGGCTTGAAACCAATTTCTGCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT
+>2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_template CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5
+GTATTTCTTATGATATTAGATGTAGGCTGGAAATAGAATGCGTGCTTTACAGGCCTCCTCTGCGTATGTTTCCATGGAAGCCGTAGGAACCTTTGATCTTCATACTTGCCCTATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTGATATAACAGGATACGGAAAGAGTTCGAAGTCGAATCGTCCAGCAAGTCGAATGACTCTAAAGACATCGGCACGGCCTTTGAGGCTCGTATATGCCTAATTCCAACAATGCAAAGTACGTGGAACAGATTTCTGCTCTTTTTTGTTCCACTCCGCCAGCCCCCCGAGGTCAGGATGAAATATTACTCTGAAAACCGCCAACCCACGGGACAGCTACGTCGAATGTCGTCGAACAGTTCTATTCCTTCCCCTCCGTTAGTACTACTCTAGGCTACTCAATTCAGGCGATAGAAGGAAAAGTCTGTACCAGGCGGGTTCTTCGGCTTTTCAATGCGCGCTGTTCTGGGGAGCTATCGCTGCAAAGAATCTTTTAAAATCGAGTCGAGTTTTCAGAGTGTTCCTCAATGTAACTGTTGGCAAAGGAGCGGGCCTGGCAGACGTGGGGAATAAGACCCCAAAACCACTTCGTGCACATCGTTCTGGTGTTCATCTGTTCTTAGCTCTTGT

diff -r 34553d0caa5e -r 26e6c9362b7b test-data/poretools-winner-out2.tabular
--- a/test-data/poretools-winner-out2.tabular Sun Jan 19 09:09:16 2020 -0500
+++ b/test-data/poretools-winner-out2.tabular Fri Sep 27 07:56:56 2024 +0000

@@ -1,2 +1,2 @@
->2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_2d CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5
-CATGTTTCTGCTGATATTGCTAATGGCTGAACTGGAAATAAGGATCCGTTGCTTGCCAACAACTATACTGCGTGGTATTTTCCCAGTGGAAAGATCGGGAACCTTTGATCTTCAATATAGTTACAATTGGTGGTCGTGATTTTAATCCCAGTTCATCCTTATTTTGGGTATAACAGGATGAGGAGGACGATTCGAAGTCACGATCATGCGCCCAAGTCAGAATGACTCCACACTACTCCTCCTCAGGACCATTTATAAATAAACAGTGATCAAGATTCCAACAATTAAGATGGCTTGAAACCAATTTCTGCTCTTGTTTTTGTTCCCACTCCCCCCTCCCCCCGAGGTCAGGATGAAGTATTAACTCTGAAGATAAAGGACCCCACGACGACAACGGCTTCCAGTTACTTCGAAGGCATTTTTCTACTTCTACTTCCCCTCCGTCTCATCCTCCTCCTCAGCTACCAAATTCACAATAGGACCGCAGGAAAAGTCTGTAGCGAATAGAACCTTCTTCACTACGGTTTCGTACCTAAAATGTTCTGGAAAAATGGATAGAAAAGAATCTTTTAAAATCGAAATCCGATTTTCGGAGTGTTAACAATGTAACTGTTGTAGAAAAGGAGCGGTAAATGAGACGTGGGGAATAAGATACAGAGCAACCACTGTCGTTAAGGACCGTTTGAGTGTTT
+>2f378243-7a3f-4584-bfb6-6800def37547_Basecall_2D_complement CPHG_CNU4299G4G_louse_library_2016_3_4_3507_1_ch126_read326_strand .poretools_tmp/test-data/2016_3_4_3507_1_ch126_read326_strand.fast5
+ACACTAGCATCTGTCTGGCCCCGATATTTGTAGTATGTACTTTACGTGTACTGTTACTATGGTATTTTCACCCTCAGTTTGCCCTTGTCACTCGAAAGTCGAATTCAGTGTTTTAAAAGATTGTCTGGTTCTATCGGTTCCGAGCAGTTTTAATAGAACTGATCAATGAAGAAGGTTCGTTCGAGCGAACTTCCAGTGATCTTGTGAATTTGAGCTGAGGAGGAGATGAAAGAGGGAAGTAGAAGTAGAAAAATTGCATCGAAATATGGAATAAATTGTATCGTCGGTCTTGCTTTTATCTGTCAGTTATACTTCAGTAGGAGGGAGTGGGATAACGACAGCAATTAGTTCAGCCTTAGTGTTGAGGAATCTGGTTCTTTAACATCTTTGGTGGGAGGAGTGTCCTTGATTTAATATGCAGAAGTATCCTTGCTGCGAATCGTCATCATCCTTTAACAATAGGATGAAAACCGTTAAAATGCCGACAGTTGGACCTGCGAGCCGCCGGCCCGTATTCATGGGAAAGTACCGCATTAACGTGTGTCAGGCGGGACGTATTATTTCCCGTTCAGCCGATTAAGTATACAGGCACAGAGACTTCC