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Changeset 2:acd337269171 (2019-06-20)

Previous changeset 1:4c172a4a4c9e (2018-10-23) Next changeset 3:645159bcee2d (2019-06-21)

Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee

modified:
nanoplot.xml
test-data/NanoPlot-report.html
test-data/NanoStats.txt
test-data/NanoStats_post_filtering.txt
test-data/bam-LogTransformed_HistogramReadlength.svg
test-data/bam-report.html

added:
test-data/HistogramReadlength.png
test-data/reads1.fasta
test-data/reads2.fasta

removed:
test-data/HistogramReadlength.jpg

diff -r 4c172a4a4c9e -r acd337269171 nanoplot.xml
--- a/nanoplot.xml Tue Oct 23 08:30:58 2018 -0400
+++ b/nanoplot.xml Thu Jun 20 10:18:48 2019 -0400

[

@@ -1,8 +1,12 @@
-<tool id="nanoplot" name="NanoPlot" version="1.13.0">
+<tool id="nanoplot" name="NanoPlot" version="@TOOL_VERSION@+galaxy0">
     <description>Plotting suite for Oxford Nanopore sequencing data and alignments</description>
+    <macros>
+        <token name="@TOOL_VERSION@">1.25.0</token>
+    </macros>
     <requirements>
-        <requirement type="package" version="1.18.2">nanoplot</requirement>
+        <requirement type="package" version="@TOOL_VERSION@">nanoplot</requirement>
     </requirements>
+    <version_command>NanoPlot --version</version_command>
     <command detect_errors="exit_code">
         <![CDATA[

@@ -350,7 +354,6 @@
                 optional="true"
                 label="Specify the output format of the plots.">
                 <option selected="True" value="png">png</option>
-                <option value="jpg">jpg</option>
                 <option value="svg">svg</option>
             </param>
             <param
@@ -385,13 +388,11 @@
         <data name="nanostats_post_filtering" format="txt" from_work_dir="NanoStats_post_filtering.txt" label="${tool.name} on ${on_string}: NanoStats post filtering"/>
         <data name="read_length" format="png" from_work_dir="HistogramReadlength.*" label="${tool.name} on ${on_string}: Histogram Read Length ">
             <change_format>
-                <when input="customization.format" value="jpg" format="jpg"/>
                 <when input="customization.format" value="svg" format="svg"/>
             </change_format>
         </data>
         <data name="log_read_length" format="png" from_work_dir="LogTransformed_HistogramReadlength.*" label="${tool.name} on ${on_string}: Log Transformed Histogram Read Length ">
             <change_format>
-                <when input="customization.format" value="jpg" format="jpg"/>
                 <when input="customization.format" value="svg" format="svg"/>
             </change_format>
         </data>
@@ -408,12 +409,10 @@
             <section name="customization">
                 <param name="plots" value="hex,kde"/>
                 <param name="title" value="My Plot"/>
-                <param name="format" value="jpg"/>
             </section>
             <output name="output_html" file="NanoPlot-report.html" ftype="html"/>
-            <output name="nanostats" file="NanoStats.txt" ftype="txt"/>
             <output name="nanostats_post_filtering" file="NanoStats_post_filtering.txt" ftype="txt"/>
-            <output name="read_length" file="HistogramReadlength.jpg" ftype="jpg" compare="sim_size" delta="30000"/>
+            <output name="read_length" file="HistogramReadlength.png" ftype="png" compare="sim_size" delta="3000"/>
         </test>
         <test>
             <conditional name="reads">
@@ -429,14 +428,30 @@
                 <param name="format" value="svg"/>
                 <param name="noN50" value="True"/>
             </section>
-            <output name="output_html" file="bam-report.html" ftype="html" compare="sim_size" delta="50000"/>
+            <output name="output_html" file="bam-report.html" ftype="html">
+                <assert_contents>
+                    <has_text text="html"/>
+                    <has_text text="Aligned read length vs Percent identity plot using dots"/> 
+                </assert_contents>
+            </output>
             <output name="read_length" file="bam-LogTransformed_HistogramReadlength.svg" ftype="svg" compare="sim_size"/>
         </test>
-
+        <test>
+            <conditional name="reads">
+                <param name="type" value="fasta"/>
+                <param name="files" ftype="fasta" value="reads1.fasta,reads2.fasta" />
+            </conditional>
+            <output name="output_html" ftype="html">
+                <assert_contents>
+                    <has_text text="html"/>
+                    <not_has_text text="Aligned read length vs Percent identity plot using dots"/> 
+                    <has_text text="<td>9.0</td>"/> 
+                </assert_contents>
+            </output>
+        </test>
     </tests>
     <help>
         <![CDATA[
-
         **What it does**

         NanoPlot_ is a plotting tool for long read sequencing data and alignments written by `Wouter De Coster`_

diff -r 4c172a4a4c9e -r acd337269171 test-data/HistogramReadlength.jpg

Binary file test-data/HistogramReadlength.jpg has changed

diff -r 4c172a4a4c9e -r acd337269171 test-data/HistogramReadlength.png

Binary file test-data/HistogramReadlength.png has changed

diff -r 4c172a4a4c9e -r acd337269171 test-data/NanoPlot-report.html
--- a/test-data/NanoPlot-report.html Tue Oct 23 08:30:58 2018 -0400
+++ b/test-data/NanoPlot-report.html Thu Jun 20 10:18:48 2019 -0400

b'@@ -52,205 +52,247 @@\n </div>\n <div class="panel panelM"> <h1>NanoPlot report</h1>\n <h2 id="stats0">Summary statistics prior to filtering</h2>\n-\n-<table>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>General summary:</b></td>\n-</tr>\n-<tr>\n-\t<td>Active channels:</td><td>169</td>\n-</tr>\n-<tr>\n-\t<td>Mean read length:</td><td>23212.6</td>\n-</tr>\n-<tr>\n-\t<td>Mean read quality:</td><td>10.1</td>\n-</tr>\n-<tr>\n-\t<td>Median read length:</td><td>9390.0</td>\n-</tr>\n-<tr>\n-\t<td>Median read quality:</td><td>10.3</td>\n-</tr>\n-<tr>\n-\t<td>Number of reads:</td><td>371</td>\n-</tr>\n-<tr>\n-\t<td>Read length N50:</td><td>60395</td>\n-</tr>\n-<tr>\n-\t<td>Total bases:</td><td>8611871</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Number, percentage and megabases of reads above quality cutoffs</b></td>\n-</tr>\n-<tr>\n-\t<td>>Q5:</td><td>371 (100.0%) 8.6Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q7:</td><td>371 (100.0%) 8.6Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q10:</td><td>207 (55.8%) 4.7Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q12:</td><td>49 (13.2%) 0.9Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q15:</td><td>0 (0.0%) 0.0Mb</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Top 5 highest mean basecall quality scores and their read lengths</b></td>\n-</tr>\n-<tr>\n-\t<td>1:</td><td>13.3 (6333)</td>\n-</tr>\n-<tr>\n-\t<td>2:</td><td>13.1 (5448)</td>\n-</tr>\n-<tr>\n-\t<td>3:</td><td>12.9 (27834)</td>\n-</tr>\n-<tr>\n-\t<td>4:</td><td>12.8 (20351)</td>\n-</tr>\n-<tr>\n-\t<td>5:</td><td>12.8 (97730)</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Top 5 longest reads and their mean basecall quality score</b></td>\n-</tr>\n-<tr>\n-\t<td>1:</td><td>393431 (10.6)</td>\n-</tr>\n-<tr>\n-\t<td>2:</td><td>341725 (11.8)</td>\n-</tr>\n-<tr>\n-\t<td>3:</td><td>320662 (8.0)</td>\n-</tr>\n-<tr>\n-\t<td>4:</td><td>226843 (9.1)</td>\n-</tr>\n-<tr>\n-\t<td>5:</td><td>221901 (10.0)</td>\n-</tr>\n+<table border="1" class="dataframe">\n+ <thead>\n+ <tr>\n+ <th>feature</th>\n+ <th></th>\n+ </tr>\n+ </thead>\n+ <tbody>\n+ <tr>\n+ <th>General summary</th>\n+ <td></td>\n+ </tr>\n+ <tr>\n+ <th>Active channels</th>\n+ <td>169.0</td>\n+ </tr>\n+ <tr>\n+ <th>Mean read length</th>\n+ <td>23,212.6</td>\n+ </tr>\n+ <tr>\n+ <th>Mean read quality</th>\n+ <td>10.1</td>\n+ </tr>\n+ <tr>\n+ <th>Median read length</th>\n+ <td>9,390.0</td>\n+ </tr>\n+ <tr>\n+ <th>Median read quality</th>\n+ <td>10.3</td>\n+ </tr>\n+ <tr>\n+ <th>Number of reads</th>\n+ <td>371.0</td>\n+ </tr>\n+ <tr>\n+ <th>Read length N50</th>\n+ <td>60,395.0</td>\n+ </tr>\n+ <tr>\n+ <th>Total bases</th>\n+ <td>8,611,871.0</td>\n+ </tr>\n+ <tr>\n+ <th>Number, percentage and megabases of reads above quality cutoffs</th>\n+ <td></td>\n+ </tr>\n+ <tr>\n+ <th>>Q5</th>\n+ <td>371 (100.0%) 8.6Mb</td>\n+ </tr>\n+ <tr>\n+ <th>>Q7</th>\n+ <td>371 (100.0%) 8.6Mb</td>\n+ </tr>\n+ <tr>\n+ <th>>Q10</th>\n+ <td>207 (55.8%) 4.7Mb</td>\n+ </tr>\n+ <tr>\n+ <th>>Q12</th>\n+ <td>49 (13.2%) 0.9Mb</td>\n+ </tr>\n+ <tr>\n+ <th>>Q15</th>\n+ <td>0 (0.0%) 0.0Mb</td>\n+ </tr>\n+ <tr>\n+ <th>Top 5 highest mean basecall quality scores and their read lengths</th>\n+ <td></td>\n+ </tr>\n+ <tr>\n+ <th>1</th>\n+ <td>13.3 (6333)</td>\n+ </tr>\n+ <tr>\n+ <th>2</th>\n+ <td>13.1 (5448)</td>\n+ </tr>\n+ <tr>\n+ <th>3</th>\n+ <td>12.9 (27834)</td>\n+ </tr>\n+ <tr>\n+ <th>4</th>\n+ <td>12.8 (20351)</td>\n+ </tr>\n+ <tr>\n+ <th>5</th>\n+ <td>12.8 (97730)</td>\n+ </tr>\n+ <tr>\n+ <th>Top 5 longest reads and their mean basecall quality score</th>\n+ <td></td>\n+ </tr>\n+ <tr>\n+ <th>1</th>\n+ <td>393431 (10.6)</td>\n+ </tr>\n+ <tr>\n+ <th>2</th>\n+ <td>341725 (11.8)</td>\n+ </tr>\n+ <tr>\n+ <th>3</th>\n+ <td>320662 (8.0)</td>\n+ </tr>\n+ <tr>\n+ <th>4</th>\n+ <td>226843 (9.1)</td>\n+ </tr>\n+ <tr>\n+ <th>5</th>\n+ <td>'..b'o1IiIi8MYbb0Cn02HPnj1Yu3YtnnrqKURGRspdHl2nbdu24eWXX8bAgQPxyy%2B/ICsrCzabDV26dEFxcTFmzpyJW2%2B9FTExMbDb7bjlllt8HV1qiPvkBLmvvvoK27ZtQ01NDYYNG8bLCYNcbW0t8vLy8O677yI3N5evd5D7%2BuuvsXPnTly4cAFDhgxBQkKC3CXRdaqrq8OMGTMwcuRI3y7FTz75JI4ePYqJEyfi2LFj6NGjBwYPHsy7jDcCQw5REBFFEQcOHEB4eDhat24tdzlEdI1qa2vx4IMPYsSIERg7diwAIDc3F%2BXl5di%2BfTuWLVuGjh07clqykbgmhyiICIKA7t27y10GETWRwWDA/fffj5ycHJw8eRLV1dWorKzEkiVLMHXqVJSUlKBjx45yl6kaDDlEREQKMmjQINjtduzatQutWrXC9OnTAfwWgAwGAwBePNJYnK4iIiJSuI8%2B%2Bghvvvkm3nzzzSver4qujCuWiIiIFGzTpk1YsWIFFi5cyIBzjdjJISIiUrBTp07B7XYjJiZG7lJUhyGHiIiIghKnq4iIiCgoMeQQERFRUGLIISIioqDEkENERERBiSGHiIiIghJDDhEREQUlhhyiIJaXl4fExER8%2BeWX1/y9Fy5cQG5uLvbs2SNBZf5XXl6OxMRE5OXlNer4/fv3IykpCSdPnvQ9NmDAADz22GNSlSiZ6upqpKSkYPPmzXKXQqQoDDlEdEUXLlzA4sWLsXfvXrlL8TtRFDF37lyMHTsW8fHxcpdz3ZxOJx588EEsWLAAtbW1cpdDpBgMOUQUUHV1dXC73bLWUFRUhMOHD%2BO%2B%2B%2B6TtY7/5cKFC40%2Bdty4cTh58iQ2btwoYUVE6sKQQxRinn32WXTr1g3Hjx/HpEmT0K1bN6Snp2P%2B/Pm%2BLkB5eTlSU1MBAIsXL0ZiYiISExPx7LPP%2BsYpLS3F1KlTkZqaiqSkJAwZMgQrVqxocK49e/YgMTERa9euxfz583HzzTcjOTkZ3333HRITE7F69erL6tu2bRsSExOxZcsWAMDx48cxffp0DBo0CF27dsXNN9%2BMxx9/HEePHm3yz2DlypVITk5G27Ztr/j1oqIijBw5El26dMHgwYPxz3/%2B87JjvvnmG0yePBk9e/ZEcnIyhg8fjvz8/AbH1E8XlpeXN3i8/ufy%2B6nACRMmYNiwYdi3bx/GjRuHrl274rnnngMA7Nq1CxMmTEDv3r3RpUsX9O/fH0888USDEBQZGYm%2Bffti1apVTf65EAUbndwFEFHg1dXVYfLkyRgzZgweeugh7Nu3D0uWLIHNZkNmZiaioqKwdOlSPPLIIxgzZgzuuusuAEB4eDgA4LvvvsO4ceMQGxuLZ555Bs2aNcO///1vzJkzB2fPnkVmZmaD8y1cuBA33ngjXnjhBWg0GsTExKBTp07Iy8vzjV0vPz8fERERSE9PBwBUVlbC5XJh6tSpCA8PR3V1NfLz8zF27Fjk5%2BdfNahcTW1tLXbt2nXVLs6RI0eQnZ2NSZMmITIyEqtXr8aMGTPQqlUr9OzZEwBQUlKCcePGISIiAjNmzEBYWBjWrVuHZ599FqdOncKkSZOuqaZ6VVVVmDZtGh555BH86U9/gkajQXl5OR577DGkpKTgpZdegsPhQEVFBbZv3466ujqYzWbf9/fq1QsLFy7E%2BfPn4XA4mlQDUTBhyCEKQXV1dXjiiScwZMgQAEBqaioOHTqEgoICZGZmwmAwoHPnzgCAmJgY3HjjjQ2%2Bf968ebBarVi5ciVsNhsA4KabbkJtbS3eeustTJgwAU6n03d8y5Yt8eqrrzYYY9SoUZgzZw6%2B//57tGnTBsBvC2i3bNmC%2B%2B67Dzrdb7%2Beevbs6QsXAODxeJCeno5hw4bhgw8%2BwPTp06/puR85cgQXL170Pb9LnT17FitXrkRcXJzv/Lt378b69et9dSxevBh1dXV47733EBsbCwBIT0/H%2BfPn8dprr2HcuHGw2%2B3XVBcAnDt3Djk5Ob4uGgBs3LgRNTU1%2BPOf/4wbbrjB93hGRsZl39%2B5c2d4vV4cPHgQ/fr1u%2BbzEwUbTlcRhSBBEDBgwIAGjyUmJuKHH374n99bU1OD3bt347bbboPJZILb7fb9169fP9TU1ODgwYMNvmfQoEGXjZORkQGDwdBgiqegoAC1tbUYNWqU7zG324033ngDQ4cORVJSEjp16oSkpCSUlpbi2LFj1/rUUVlZCeA/XalLdezY0RdwAMBoNKJ169YNfja7d%2B9GamqqL%2BDUGzlyJC5cuIADBw5cc13AbwuIfx9w6uvR6/V4/vnnkZ%2Bfj7Kysqt%2Bf/1zqqioaNL5iYINOzlEIchsNsNoNDZ4zGAwoKam5n9%2B77lz5%2BB2u7F8%2BXIsX778isecPXu2wb%2BbNWt22TEulwsDBgzA2rVr8cc//hFarRb5%2Bfno0qUL2rdv7ztu/vz5WLFiBSZNmoSePXvC6XRCEATMnDmzUfVe6uLFiwBw2fP/fV2XuvRnc%2B7cuSs%2Bp6ioKN/Xm%2BJKY7Zs2RLvvPMOli5diqysLPz6669o0aIFJkyYgAceeKDBsfXPqSk/F6JgxJBDRNfE4XBAq9Vi%2BPDhuPfee694TPPmzRv8WxCEKx43atQofPLJJ9ixYwfi4uLw5ZdfYvbs2Q2OWbduHUaMGIGnn366weNnz55t0rqTsLAwAL9NjTWVy%2BVCVVXVZY/Xd4nqz1EfOi69rPvSEFjvaj%2BnlJQUpKSkwOPx4NChQ1i%2BfDnmzp2LyMhI3HHHHb7j6p9T/fmJQh1DDhFdkcFgAPCfzkc9s9mM3r1746uvvkJiYqLvuKZIS0tDdHQ08vLyEBsbC6PRiGHDhjU4RhAE6PX6Bo999tlnqKioQKtWra75nAkJCQCAEydONLnu1NRUfPrpp6ioqEB0dLTv8Y8%2B%2Bghms9m3hql%2BD56jR482WCBdWFjYpPNqtVp07doVbdu2xfr163H48OEGIad%2BKqv%2BORKFOoYcIroim82G%2BPh4bNmyBampqXA6nQgLC0Pz5s0xY8YM3HvvvRg/fjzuuecexMfH45dffsGJEydQWFiI9957r1Hn0Gq1GDFiBP7%2B97/DZrPhtttuu2zBbv/%2B/X1XUSUmJuLw4cNYtmwZYmJimvS8YmJi0KJFC3zxxRdN%2Bn4AmDJlCrZu3Yr7778fU6ZMgdPpxPr16/HZZ59h2rRpvueQnJyMNm3aYMGCBfB4PHA4HNi8eTM%2B//zzRp9r5cqV2L17N/r374/Y2FjU1NRgzZo1AIC%2Bffs2OPaLL76Ay%2BVCYmJik58bUTBhyCGiq3rppZewYMECTJ48GbW1tRg5ciTmz5%2BPdu3aIS8vD0uWLEFOTg7OnDkDu92OVq1a%2BS79bqxRo0bhzTffxJkzZzB69OjLvj5jxgzodDq89dZb%2BPXXX9GpUyfk5ubilVdeafLzysjIwIoVK1BbW9ukTlTbtm2xatUqLFy4EFlZWbh48SISEhIwb968BoumtVot3njjDbz44ouYNWsWDAYD7rjjDvzlL3/Bo48%2B2qhzdezYETt27EBubi6qqqpgsVjQoUMHvP7660hLS/MdJ4oiCgsLkZGRcdVpL6JQI4iiKMpdBBFRIFVUVGDgwIFYsGABhg4dKnc5frFr1y489NBDKCgo4HQV0f/hJeREFHKio6PxwAMP4PXXX4fX65W7HL9YsmQJRo8ezYBD9DucriKikDR58mSYzWZUVFRctt%2BN2lRXV6NXr15XvdqNKFRxuoqIiIiCEqeriIiIKCgx5BAREVFQYsghIiKioMSQQ0REREGJIYeIiIiCEkMOERERBSWGHCIiIgpKDDlEREQUlP4/fpGCIC%2BXTtwAAAAASUVORK5CYII%3D">\n \n <br>\n <br>\n'

diff -r 4c172a4a4c9e -r acd337269171 test-data/NanoStats.txt
--- a/test-data/NanoStats.txt Tue Oct 23 08:30:58 2018 -0400
+++ b/test-data/NanoStats.txt Thu Jun 20 10:18:48 2019 -0400

@@ -1,27 +1,6 @@
-General summary:
-Active channels: 169
-Mean read length: 23212.6
-Mean read quality: 10.1
-Median read length: 9390.0
-Median read quality: 10.3
-Number of reads: 371
-Read length N50: 60395
-Total bases: 8611871
-Number, percentage and megabases of reads above quality cutoffs
->Q5: 371 (100.0%) 8.6Mb
->Q7: 371 (100.0%) 8.6Mb
->Q10: 207 (55.8%) 4.7Mb
->Q12: 49 (13.2%) 0.9Mb
->Q15: 0 (0.0%) 0.0Mb
-Top 5 highest mean basecall quality scores and their read lengths
-1: 13.3 (6333)
-2: 13.1 (5448)
-3: 12.9 (27834)
-4: 12.8 (20351)
-5: 12.8 (97730)
-Top 5 longest reads and their mean basecall quality score
-1: 393431 (10.6)
-2: 341725 (11.8)
-3: 320662 (8.0)
-4: 226843 (9.1)
-5: 221901 (10.0)
+General summary:
+Mean read length:           2,564.9
+Median read length:         1,910.0
+Number of reads:                9.0
+Read length N50:            4,275.0
+Total bases:               23,084.0

diff -r 4c172a4a4c9e -r acd337269171 test-data/NanoStats_post_filtering.txt
--- a/test-data/NanoStats_post_filtering.txt Tue Oct 23 08:30:58 2018 -0400
+++ b/test-data/NanoStats_post_filtering.txt Thu Jun 20 10:18:48 2019 -0400

@@ -1,12 +1,12 @@
-General summary:
-Active channels: 169
-Mean read length: 23212.6
-Mean read quality: 10.1
-Median read length: 9390.0
-Median read quality: 10.3
-Number of reads: 371
-Read length N50: 60395
-Total bases: 8611871
+General summary:
+Active channels:                169.0
+Mean read length:            23,212.6
+Mean read quality:               10.1
+Median read length:           9,390.0
+Median read quality:             10.3
+Number of reads:                371.0
+Read length N50:             60,395.0
+Total bases:              8,611,871.0
Number, percentage and megabases of reads above quality cutoffs
>Q5: 371 (100.0%) 8.6Mb
>Q7: 371 (100.0%) 8.6Mb

diff -r 4c172a4a4c9e -r acd337269171 test-data/bam-LogTransformed_HistogramReadlength.svg
--- a/test-data/bam-LogTransformed_HistogramReadlength.svg Tue Oct 23 08:30:58 2018 -0400
+++ b/test-data/bam-LogTransformed_HistogramReadlength.svg Thu Jun 20 10:18:48 2019 -0400

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diff -r 4c172a4a4c9e -r acd337269171 test-data/bam-report.html
--- a/test-data/bam-report.html Tue Oct 23 08:30:58 2018 -0400
+++ b/test-data/bam-report.html Thu Jun 20 10:18:48 2019 -0400

b'@@ -32,8 +32,7 @@\n <title>NanoPlot Report</title>\n </head><body>\n <div class="panel panelC">\n-<p><strong><a href="#stats0">Summary Statistics prior to filtering</a></strong></p>\n-<p><strong><a href="#stats1">Summary Statistics after filtering</a></strong></p>\n+<p><strong><a href="#stats0">Summary Statistics</a></strong></p>\n <p><strong><a href="#plots">Plots</a></strong></p>\n <p style="margin-left:20px"><a href="#Histogram_of_read_lengths">Histogram of read lengths</a></p>\n <p style="margin-left:20px"><a href="#Histogram_of_read_lengths_after_log_transformation">Histogram of read lengths after log transformation</a></p>\n@@ -54,218 +53,137 @@\n <p style="margin-left:20px"><a href="#Aligned_read_length_vs_Percent_identity_plot_using_a_kernel_density_estimation">Aligned read length vs Percent identity plot using a kernel density estimation</a></p>\n </div>\n <div class="panel panelM"> <h1>NanoPlot report</h1>\n-<h2 id="stats0">Summary statistics prior to filtering</h2>\n-\n-<table>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>General summary:</b></td>\n-</tr>\n-<tr>\n-\t<td>Average percent identity:</td><td>85.3</td>\n-</tr>\n-<tr>\n-\t<td>Mean read length:</td><td>12291.0</td>\n-</tr>\n-<tr>\n-\t<td>Mean read quality:</td><td>13.2</td>\n-</tr>\n-<tr>\n-\t<td>Median percent identity:</td><td>87.3</td>\n-</tr>\n-<tr>\n-\t<td>Median read length:</td><td>7577.0</td>\n-</tr>\n-<tr>\n-\t<td>Median read quality:</td><td>13.5</td>\n-</tr>\n-<tr>\n-\t<td>Number of reads:</td><td>1115</td>\n-</tr>\n-<tr>\n-\t<td>Read length N50:</td><td>21987</td>\n-</tr>\n-<tr>\n-\t<td>Total bases:</td><td>13704509</td>\n-</tr>\n-<tr>\n-\t<td>Total bases aligned:</td><td>12343518</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Number, percentage and megabases of reads above quality cutoffs</b></td>\n-</tr>\n-<tr>\n-\t<td>>Q5:</td><td>1115 (100.0%) 13.7Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q7:</td><td>1115 (100.0%) 13.7Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q10:</td><td>1098 (98.5%) 13.6Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q12:</td><td>936 (83.9%) 11.9Mb</td>\n-</tr>\n-<tr>\n-\t<td>>Q15:</td><td>10 (0.9%) 0.0Mb</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Top 5 highest mean basecall quality scores and their read lengths</b></td>\n-</tr>\n-<tr>\n-\t<td>1:</td><td>15.7 (1461; SRR5665597.758)</td>\n-</tr>\n-<tr>\n-\t<td>2:</td><td>15.5 (1790; SRR5665597.725)</td>\n-</tr>\n-<tr>\n-\t<td>3:</td><td>15.5 (615; SRR5665597.293)</td>\n-</tr>\n-<tr>\n-\t<td>4:</td><td>15.5 (162; SRR5665597.876)</td>\n-</tr>\n-<tr>\n-\t<td>5:</td><td>15.5 (626; SRR5665597.822)</td>\n-</tr>\n-\n-<tr></tr>\n-<tr>\n-\t<td colspan="2"><b>Top 5 longest reads and their mean basecall quality score</b></td>\n-</tr>\n-<tr>\n-\t<td>1:</td><td>99139 (13.9; SRR5665597.31)</td>\n-</tr>\n-<tr>\n-\t<td>2:</td><td>80522 (13.5; SRR5665597.790)</td>\n-</tr>\n-<tr>\n-\t<td>3:</td><td>79569 (13.5; SRR5665597.332)</td>\n-</tr>\n-<tr>\n-\t<td>4:</td><td>70195 (10.2; SRR5665597.799)</td>\n-</tr>\n-<tr>\n-\t<td>5:</td><td>69426 (12.2; SRR5665597.1000)</td>\n-</tr>\n+<h2 id="stats0">Summary statistics</h2>\n+<table border="1" class="dataframe">\n+ <thead>\n+ <tr>\n+ <th>feature</th>\n+ <th></th>\n+ </tr>\n+ </thead>\n+ <tbody>\n+ <tr>\n+ <th>General summary</th>\n+ <td></td>\n+ </tr>\n+ <tr>\n+ <th>Average percent identity</th>\n+ <td>85.3</td>\n+ </tr>\n+ <tr>\n+ <th>Mean read length</th>\n+ <td>12,291.0</td>\n+ </tr>\n+ <tr>\n+ <th>Mean read quality</th>\n+ <td>13.2</td>\n+ </tr>\n+ <tr>\n+ <th>Median percent identity</th>\n+ <td>87.3</td>\n+ </tr>\n+ <tr>\n+ <th>Median read length</th>\n+ <td>7,577.0</td>\n+ </tr>\n+ <tr>\n+ <th>Median read quality</th>\n+ <td>13.5</td>\n+ </tr>\n+ <tr>\n+ <th>Number of reads</th>\n+ <td>1,115.0</td>\n+ </tr>\n+ <tr>\n+ <th>Read length N50</th>\n+ <td>21,987.0</td>\n+ </tr>\n+ <tr>\n+ <th>Total bases</th>\n+ <td>13,704,509.0</td>\n+ </tr>\n+ <tr>\n+ <th>Total bases aligned</th>\n+ <td>12,343,518.0</td>\n+ </tr>\n+ <tr>\n+ <th>Number, p'..b'AAAAAAAeQMAGAAAAAMADCNgAcA1ZtmyZQkND1aNHj4tuExoaqqSkJOftbdu2KTQ0VNu2bauILpbbqlWrFBoaqp9//tl0Vy6rtDW92l7T9u3blZSUpJycHLf7oqOj9fjjjxvoFQAA9kHABoBrSEpKiiRp7969%2Buabb0r1mBYtWmjlypVq0aLFH9k1XAPS0tI0a9asEgM2AAC4cgRsALhG7Ny5U3v27FGnTp0kSe%2B//36pHle9enXddtttql69%2Bh/YO7POnDljugsAAAAEbAC4VjgC9bPPPquoqCitXbu2VMHyYsuZ//Wvfyk2Nlbh4eHq3r271qxZo3Hjxik6Otq5zc8//6zQ0FAtWrRIixcvVnR0tKKiovTggw9qx44dbs%2B1c%2BdOxcfH684771RERIR69%2B6tdevWuW23Y8cODRw4UBEREWrXrp2mTZumwsLCUtVh3LhxioqK0vfff69hw4YpKipKjz76qPP%2B//znPxoyZIhatmypyMhIDRw4UF9%2B%2BaXLPg4cOKDx48era9euioyMVPv27RUfH6/vv//e7fkyMjI0fPhwRUZGqnXr1kpISNDp06dL1deLKU0fk5KSFBoaqr179%2BqZZ57R7bffrrvuukvjx49Xbm6uy7Y5OTl64YUXdOeddyoqKkojRozQTz/95HK4QFJSkl5//XVJUpcuXRQaGlriuNi8ebP69OmjW2%2B9Vd26dSv1DzkAAEDyNd0BAMDl5eXlae3atYqIiFBISIj69eunCRMm6OOPP1afPn3KvL%2BVK1cqISFBsbGxzsA2a9YsFRQUlLj98uXL1aRJE73wwguSpBkzZmjEiBH67LPPVKNGDUnS1q1b9dhjjykyMlKTJk1SjRo1tG7dOj399NPKy8tT3759JUnp6el69NFHdeONN%2Bq1115TQECA3nvvPaWmppa6/wUFBXriiSc0cOBAxcXFqaioSJL04YcfauzYserSpYumTp0qX19frVy5UsOHD9eiRYvUtm1bSdKxY8cUFBSkZ599VrVq1VJ2drZWr16tBx54QKtXr1aTJk0kScePH9fgwYPl6%2Burl156SbVr19aaNWv097//vcw1dyhtHx1Gjx6t7t27q3///vrhhx80bdo0SdKrr74qSSouLlZ8fLx27dqlv/71r2rRooXS0tL02GOPuexnwIABys7O1jvvvKNZs2apbt26kqRmzZo5t9mzZ4%2BmTp2quLg41alTR8nJyXrxxRd10003qVWrVuV%2BzQAAVBYEbAC4Bnz88cfKzc1V//79JUndu3fXlClT9P7775c5YBcXFyspKUmRkZGaOXOms/32229X165dVa9ePbfHVKtWTfPmzZOPj48kqV69ehowYIA2b96s%2B%2B67T5KUmJio4OBgLV26VL6%2B575e2rdvr5MnT2r69Onq3bu3vL29NXv2bFmWpaVLl6pOnTqSpE6dOl3yxG2/V1BQoFGjRqlfv37OtjNnzmjKlCnq1KmTZs%2Be7Wzv2LGj%2BvTpo%2BnTpys5OVmS1KpVK5fAWFRUpI4dO6pHjx5auXKlxo8fL0lasmSJTpw4oQ8%2B%2BEC33HKLc3/Dhg3T4cOHS93f8vTRoX///s6wfNddd%2BnAgQNKSUnRlClT5OXlpS1btujrr7/WpEmT9Je//EWSdPfdd8vf398ZxiWpfv36%2BtOf/iRJat68uf785z%2B79e/kyZNasWKFGjRo4KzT1q1btWbNGgI2AAClwBJxALgGpKSkKCAgwBlmq1Wrpm7duul///uffvzxxzLta//%2B/crMzNS9997r0t6gQQNFRUWV%2BJhOnTo5w7UkZ9g8dOiQpHNLrvft26eePXtKkgoLC51/OnTooMzMTO3fv1/SuSXrbdu2dYZrSfLx8VH37t3L9DpiY2NdbqelpSkrK0t9%2BvRxef7i4mK1b99eO3fu1G%2B//ebs39y5c9W9e3eFh4crLCxM4eHh%2BvHHH5WRkeHc57Zt2xQcHOx8vQ5l%2BTGgvH10uHDJvnTuLPH5%2Bfn69ddfJUlfffWVJLm9n46xUhbNmzd3hmtJuu6663TzzTeX68cEAAAqI2awAeAqd%2BDAAf33v/9V165dZVmW8wzQ3bp106pVq5SSkqJnn3221Ps7efKkJKl27dpu99WpU8cZmi8UFBTkctvf31%2BSlJ%2BfL%2BncUmpJmjp1qqZOnXrJ583KynIJ1xc%2Bd2lVqVLF7aRtjj6MGTPmoo/Lzs5W1apV9dprr2n58uWKi4tTq1atVLNmTXl5eWnChAnO1%2BToa0kzvWXpa3n76HCx2ufl5Tn76Ovr67Zdefr4%2B304nu/CmgAAgIsjYAPAVS4lJUWWZWnDhg3asGGD2/2rV6/WU0895TLDfCnXX3%2B9JDlnQC/kCIBl5djn448/rpiYmBK3ady4saRzIa6k5ynLc3t5eV20DxMnTlRkZGSJj3P8qPDRRx%2Bpd%2B/eeuaZZ1zuP3nypAIDA523PdHX8vaxtIKCglRYWKisrCyXgJyZmVmuPgIAgPIjYAPAVayoqEirV69Wo0aNNHnyZLf7P//8c7399tvavHmzOnfuXKp9Nm7cWHXr1tX69es1dOhQZ/vhw4eVlpZW4jHYl9OkSRPdfPPN2rNnj1to/b3WrVtr48aNOn78uHOWtaioqMSzjZdFy5YtFRgYqPT0dA0aNOiS23p5ecnPz8%2Bl7fPPP9fRo0d10003ufR14cKF2rNnj8sy8bKckK28fSytO%2B%2B8UwsXLtS6dev00EMPOdtLqufvVx4AAADPImADwFVs8%2BbNOnbsmJ577jm1bt3a7f7g4GC9%2B%2B67ev/990sdsL29vTV69GglJCRozJgx6tevn3Jycpxnli5pdrg0EhMTFRcXp%2BHDh6tPnz664YYblJ2drYyMDO3evdt5QrUnnnhCGzdu1JAhQzRq1CgFBARo%2BfLlV3wt62rVqmnChAkaN26csrOzFRsbq9q1a%2BvEiRPas2ePTpw4ocTEREnnjil3nC08NDRUu3fv1qJFi1S/fn2XfQ4ZMkQpKSkaMWKEnnrqKedZxPft2/eH97G02rdvr5YtW2rq1Kk6deqUwsPDlZaWpg8//FCS62x/SEiIJGnp0qXq06ePfH191bhxY1tfIx0AgIpEwAaAq9j7778vPz8/l7NlX6hWrVqKiYnRhg0bXGaEL%2BfBBx%2BUl5eXFi5cqFGjRunGG290XnbryJEj5eprmzZtlJycrLlz52rKlCnKyclRUFCQmjZt6nICrpCQEC1evFhTp07V2LFjVbNmTd1///2KjY3VxIkTy/XcDr169VKDBg20cOFCvfTSSzp9%2BrRq1aql5s2bu5xt/cUXX5Svr6/mz5%2Bv3377TWFhYUpKStKMGTNc9le3bl29%2B%2B67euWVVzRp0iRVqVJF99xzjyZOnKiRI0f%2BoX0sLW9vb82dO1evvfaaFixYoIKCArVs2VJvvPGGHnjgAZcl761bt9bjjz%2Bu1atXKzk5WcXFxVq2bFmJP94AAICy87IsyzLdCQCAeTk5OYqNjdU999xzRdd5xtVhzZo1eu6557RixQq1bNnSdHcAAKgUmMEGgEooMzNTc%2BfOVevWrRUUFKTDhw9ryZIlOn36tB555BHT3UMZpaam6ujRowoJCZG3t7d27NihRYsWqVWrVoRrAAAqEAEbACohf39/HTp0SImJicrOzlZAQIAiIyOVmJio4OBg091DGVWrVk1r167VnDlzdObMGdWtW1d9%2B/bVU089ZbprAABUKiwRBwAAAADAA7xNdwAAAAAAADsgYAMAAAAA4AEEbAAAAAAAPICADQAAAACABxCwAQAAAADwAAI2AAAAAAAeQMAGAAAAAMADCNgAAAAAAHgAARsAAAAAAA/4PyC/awKNuy0RAAAAAElFTkSuQmCC">\n \n <br>\n <br>\n'

diff -r 4c172a4a4c9e -r acd337269171 test-data/reads1.fasta
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/reads1.fasta Thu Jun 20 10:18:48 2019 -0400

b'@@ -0,0 +1,10 @@\n+>570cfbe8-1011-441d-911f-d98dcc4472fc_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2408 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode01/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2408.fast5\r\n+TTGTTGTACTTCGTTCCGGTTACGTATTGCTTCAGAAAGTTGTCCGGTGTCTTTGTGGTTTCATCGTGAAACGCCTTCGCGTTTTTTCGTGCGCCGCTTCACTGGTTTCCTGTGGCTTCGCGGCTGGTTTTACTTGCTTTGTTATAAACCATTTGCCCGCTTCGACATCAGCGGTCAGCGTTTGAACTCATGCGCGAACAGCCCCAACAACTCTTCGCTGCCGGTTACTGCACTTCCAGTTGTTCACAAGGTCAGCTCAAGTTCAACGTCGGTTTTAATCGTCGCCAGCTGGTATGAGATAAACAGCTTCTTTGTTTTTTGCTCGAGCTTCGCTGCCGTGATTTTCGCGCCACGGAAGCTCAACCCGAAAACCGTTTTTCTGGCTCGGCATACAGCGTATCAGTCGAACCTT\r\n+>b9497173-8976-48fa-a822-93edea3f0baf_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2617 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode01/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2617.fast5\r\n+TGGTATGCTTCGTTCAGTTACGTATTGCTAGAAAGTTGTCCCATTGTCTTTGTGGTTTTCGCATTTATCGTGAAACGCTTTCGTTTTTCGTGCGCCGCTTCAATTCGTGGTGGCTTTCAGGGCACTCGCGCCGGATTTAGCCGCTAAAATGACGTCCATGCGTTCGTGTGCATAGTATATGCAGACAGAAGAAATCATCAGGCGCGTTTTCACGATATGGACGGGAAAGATGCCGGAAATAGGCAGGAGGACGCAGAAATGCCCTAGGGAGTCTGAGATGGTGCGGGCAACGGATATTATATTAATATACGTTGGTAAGTGTACCAATGCAAGTTTTCAAGTTTTGAGACTCGTTTAGAACATCTAAAAAAAAACACATGAATGCTGCTATAATGAAGCGACTGTTTGATGGTTCATGGTTTACCAGTAGATGAAAACTCAATACAGCGCTATTTAAGAACGCTTAAAATGTACATTCTTGTATTTTTAACGTGCAGAGTAACAGGCTCTAGCTGGTTATGGTACCTCGAAGTTCCTTAGCAAAACAAAGGGACTTTGAAGCTACGCAACCGCCAAGAAGCTCGCTTCAAAGTCCCTGTACCGCAGCTATATTGCATGGGTTTGGTTAAGACATACGTCATGTCTTTGGGGGGCATATTATGGTGAAAAGCTCGCGTCTACACCAATATTTATACATTTCTCTTCAATATTGACGCCGTTCCAGCCAACTTTTGCTATATGGGTGACAATTTTCGCTTTTAAACGGAGATGTCTCCATGATTGAGCATGATCCTAAAATCTGCGTTTTATTGCTGACAGGCATTACCATTCTTTCTATGCTGGAAAACGTGCCGCGTCTTGCATTCTGCTTTTGGCAGTGCGGGAGTCTCAATGAGCTTTAACTACTCCCCTCATAACGCCGTTCGTGTTTTAAGCCGCCTTCTCGATAAGAGTTTCTGAGTGCTGAAGAAATTCGCCTTTACGATAGGTAGAGACGTTGATTGAGAGTGCATCAACAACAGGCTTCTTGTTCCTACGAGCATGAAGATCAGCCGCGATGGTGAGTATGTTCGTGTCTGGTATTTGTCTCAGAAGCCATTGATGACTATTACAACCGTCAGTAGTATCAGTTTAGTCAGCTTGAGGCATGCTGTCATGTTGCTCATCAGCATAGAAGAAGCCTCTACGACCGCTCGTTGCTTTTATCGCTGGGTGAAACTGTCAGAAAGTATCCGTATGATTCTTGTATGATGATTAGGAGGATATTATGTTTCTGGGTTATTTGTTATTTTGCTGGCTTTCTCTACCTATTGAGCTTGGGGTTTCTTCTGGAAACATTGAATGAAGTGCCTCTCATAGATTTGTTTTGGGCTTCATCTGGTCTATAAAACAGTCAGGGAGAGAAGAGTGCTTAAACTTTGATGTTTAGGTCTTAAACTAGACTAAAAAAAGCTCATAATATGCGAGCTTTTATTTATTCATAGACTTGTGTAGTTTTCACTCTTTTTTGCACGGTGTTTCTAAGCCACAAAAAAAAACTTCTGCCTGACCGCCTGTTTGTGGTTGCCTGTTATAAAGTAACAGTAAAAAAATCATGCGTTTCGCAGGAGAAAATATGAGCAAGAGCTATCATAAATCGGCATATTTCCAATAGAGTTCCGTCCTCTTTGAAAGGGGTAGTTCATGAAAAGAGTGGTTCATGGAAGGAAATGTTTATGATTTGGAGTTAGGTGTAAAGGCGCAAAGAAAATATAAGAGATAGTGAAATTCATCATTAAAATGGTGATTGAGAGGCATTATAGAGCACAACTAGGGAAGTTAAAGGAGGAAAAAAGAGCACTCCAATGGTGCCAATGAAGATATTTCTGGTCTGATAGTATAGATCAGATTACATCTAGGCAATCCATGGATATTATAGGTTTCTGTGGATGTTGGTTCCGGTATTAAGTCAATTGTAGATGTAACCGAAGGAAAGAACTGGAAGATTTAGGATACACGAAGTATATGGGATAAGAGTTAGCGATCATTATGCAGAAACTTTTTCTGAGTGAACGGGGATACTCCATTCCAAAGTATAGTCCTTGCAGGATTTTGGTGATTCATATCAAAGATGTAAGTACTACCCACATGCTGTATGAAAGTGCATGAAATAAAGATAGAGAAAAAAAATCTGGAAAATCAAAAGAGTTAAAGAAACGAGCTTTCCTTATGAATCAATAAGCACAAGATCAGTGAGTTGCTTAGAATGATTTTCCATCATAATTTTGTATTAGGTGTTATTAGGAGCGAGACTGAAAGAAAGAAATCTTCGAAGTGGGGGGTTTAACCAAATCTGAAGTTGATATAATCATCAGATCATGACAAAATTTGAGCACCACTTATGGCCAGCAACAGCTATACTTGATGCTGACTTCTTGCATTAAAATAATCAAGTGAAGAGCTCACCTTAAATCTAAGTTAAACGCTTTCTTAAAAGTTCTAATTCCTTGGGCTTAATGGCCGCCAAACACTTGCATGAAGGGTATGTACGCAGCTCATTCTGCCTCTTTACAATCTGCATGTCTTCCAGACAGGTAGGTGCTGCTATTTAGATATAAAGGAAATTTAATTGCTGTTGGGCATGTTCCTAAATTGCAGTGGCCTTTTATAGTGCTGATGATGGAGTGAATGATCATCGCTGTGTCTACAAAGGATGGCAAATGTTACAATGATAAGAAAATTAAGAAAAGATAAAATACAGCAAATGGCCTTTCTGATAAGGTTAAGGGAGTTGTCTGTTCAGTTAACTCAGAACAAGCGAAAAGGTTGCTGAATAATCTACAGGCTGCTCTGTATCATCAATCATTGATACTCTCGCTCTATTCATGCTACTGAAATGGATGCTATTACATCTCTTGTAGACTCGGGAATGG'..b'ACAGACAACTCCTTAACCTTATCGAAGCAATATTTGCTGTATTTTATCTTTATTTTAATTTTCTTACTTCATTGTAACATTTGCCACACAGCCAGAACACAGCGATGATCATTCACTCCATCATCAACTATAAGGCCACTAGGTAAATTGGAACATCATTGCGTAACAGCAATTAAATTTTCCTTTATATCTCCCTAAAATAGCAGCACCTACGCAATAAAGACATGCAGATTAATAAGAGGCAGAGATTGAGCTGCGTACATACTTGCGCGTTTGGCGTGACCATTAAGCCCATGAATTAGACCAGAAAGCGTTTAACTTTAGTTTAAGGTGAGGCTCTCTGGCCTTGATTATTTTAACAAAATAGTCAGCATCAAGTATAGCTTTTGCTGTTTGCTGTTGTTTAAAGTACCCGGCTTTACTTGGCAGGCACCGCCACTTTGCGCATGGTTCAAAACACGTACCGCCTTTGCCGCGTAAACGCTACCGCGCTGCTGCCATTTTGGTATGCAAAACGGCTGCTGCGGCTGCTGCGTACATACGCTGCGGCACTTTGCTAAGCGCGTAGCGCATAAAAGCCGCAAGCCACGCATACTTTTTTGGCCGCCACCGCAAAACACGCCGTCGCGCACGCCACGCGCCACCGTAGCGTTGCTTTGCTGGGCAGCGCGCGACGCATAAAAGCACGCCGCGGCGCATACGTACGCAACGCCTGCGCTTTTTACTACTCATTTAGGTGTCTTTTCTCCTTTAACCTAGCTGTGCTCATGGCGCCTCTCAATCACCATTTAGAATCTTCAATTATCCTTTTTATATTTCTTCTCTTTTGTATAATAACTCAACTCAAATCAAACGCTCATAGACCCTCTTTCATGAACTACCCCCTCTTTCAAAAGGACAAACTCTATTGGAAATACGATTTAGTGATACTTTGCTCATATTTTCTCCTGCGAAACGCATGATTTTATATTATCTTTAAACAGAGCAATACACAAACAGGCGTAATGCGCGGTTTTTTTTTGCTTAGAACACCGGGCAAAAAGAGTGAAATACCTGAAGTCTATGAAATAAATAAAAAGCTCTTTATGTGCGAGCTTTTGATCTAGTTAAGACATCATTAGCTTAGCACTCTCTCCCTGACTGCTTCATGAACCAGATGAAGCCCAAAACAAATCATGGCGAGAGGCGCCCCATTCAACGTTTCGAGGAAGAAACCCCAAACTCTCTAATAGGTAAATAGCAAAAACAACAAATAACCCCAAAGTATAATATCCTCCTAATCATCATTAGCAGCAAAGATCAGCAGGATACTTTCTGGGACAGTTTCACCTAGCGATAAAACAAACGAGCGGCCGTAGAGGGCTTTCTATGCTGACGAGCAACAGCGGCAGCATGCCTCTGCTGACTAAACTGATATCGACGGTTGTAATAATCATCAATGTGAAGCTAGCAAGGATAAATGGTACGAACATACTCACCATCGCGTGATCTTCATGCTCGAAACAGGAACAAAAGCCTGTTGTTGATGTAGCAATCACCGCATATCATCGTAAAAAGGCAGAATTTCTTCCCAACGCCAAACTCTTTATCGAAGGCGGTTTAAAACACGAACATTGTAGCATAACGAGGGAATGGTTAAAACTCTCATTGAGCACCCTCCGCATACAAAAAAGCAGAATGCACAAGAGACGCGGCACGTTGTGCATAGAAAAGAATCAATGCCTGCAGCACAAAATGCAGTTGGATCATGCTCGATGTGGAACATCTCTCGTTTAAAGCGAAAATTGTCCTTACATATAAAAGTTGGCTGGAAACGGCGTCAATGTGAAGAAAATGTACTTTTATAAATATTGAGTGTAGACATGAACGCGTTTTCTATAATATACAAAGACATGACGTATGTCTTAGCAAATATGCAATATAGCTGCGGTACGGGGACACAGACTTCTTGGCGGTTGCGTAGCTTCAAAGTCCCTTTTGTTTTGTCCCTATAAGGGAACTTTTCGAGTGTGCCATAACCTAGCTAGAGCCTGTTACTCTTCGTTAAAAAAATACAAGAATACCATTTAAGCGCCTAAATAGCTGTGTGAGTTACTAAATACAATGGTAAACCATGAACCATCAAACGGTCGCTTCTTAGCAGCATTCATGTGCTTTTTTTTAGATGTTCTAAACGGTCTCAAACCTGAAAACTTGCATTGGCATACTTATAACGAGCTATTTACCATAACGTCCGTTGCCCGCACCATCTCAGACTCCTCGGCATTTCTGCGTCTCCTGCCCGGCTACATCTTCCCTGTCCATATCGACGCGCCTGATGATTTCTTCGCGTCTGCGCAATATGCACACGAACGCGTCATTTTAACGGCTAAATCGGCGAGCGCCCTGAAAGCCACCACGAACCCCACCGATAACGGTGAAAGGGTGCGCAGTTTACTGTGCGACCGTGAGGCGGCAGACCGTCAGCGGGATTTATTAACTAAGGGGTCGGTTAACTTTGAGATTAATCAGCTTTTTTACTGATGATGAACGGGATTCGGAAGGAATACCCTTGCGGCGCGAAGCGATGTATACATCTAGCATTATATGGTCATTTATTGCAGAAGGGAAGGTAGCATTTTGATAATAGCAAAAAAAACAGCAAAAGGATTAGCAG\r\n+>f5c07582-ccd5-4bd8-aa45-4ebb5011fc08_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch101_read12606 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode01/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch101_read12606.fast5\r\n+CTGTTATGCTTCGTTCAGTTACGTATTGCTAAGAAAGTTGTCGGTGTCTTTGTGGTTTTTTTAAATTTTATCGTGAAACGCTTTTCGCGTTTTCATGCGCCGCTTCACTCTGGCATAACGTTGAGGCCGTCAACTAGACGCTCAGTTCTTCCATATGGGGCCAAGTTCCGTCGCCGCGTTCGTATGTTTTCTGTAAGATCAGCAACGCATCTGGCGTGAAATTCACTTTCAGCGGAGTTGTTCAAATACAACGATGCAGGTGTTGATACAAAACAATTAGAAGAGAACCAGAAACGATCTCGGCTCTTACCATGTTAAAGCCCCCGAACTGGCGCGCCGTGATATGTTCTCGGCGCGGTTATTTCCGCGCCGTTGATGTTATATCAATACGGTTTGTCGGCCCACTGACACGGCGATCGACACTTACCGACGGTAAAGAAGGTTCCCCGACTTTACCGCCTTCTGGTTTGATACGGTAAAACCGGGGCAACTACTTACCGTTTATGCGTTAACTCGGTAACCATTACTGGTGCCTATAAGTTCACTATCCATTGTGAGAAAAGTCAGGTGATTATGGATGTGGAAAATCTTACCTGTATGCGCGCAAAGCTGTTAAACAACTGGGCATTGCGCCCGACCGGTAGTATGTTCAGCTGCGGTACTAATGAACGTCGGATGTGCATTACAATTCATCGCAAATTCACTTCGACTCTGAATCGTCCTGTCCATGTGGCGGGGCAGCGGCAGGTGGATTGCCGTCCGCTGAATAATCCGCAAAAAATTGCGGTTCAATGCTTACCGACAACAACTTGAAAAGGTTTGGTTATTACAACTGGATGACTTCATTATCAAGGACATTATGGGGCTGTTATAACAAAACGCCAAGTCATGGGTGGAACCGCGTAACAGTGGAGTAGGGCACCATCGGCCTGATGGAAATCCCAACAACAGGGCAAAACGCTGGATAGCATTGTCTGCTTCTGGCAGCCAGAAAAAGCTGTAAAGCAGG\r\n'

diff -r 4c172a4a4c9e -r acd337269171 test-data/reads2.fasta
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/reads2.fasta Thu Jun 20 10:18:48 2019 -0400

b'@@ -0,0 +1,8 @@\n+>92b7f497-20cb-446e-803a-eb3ea8069c12_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read1636 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode02/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read1636.fast5\r\n+TCATTGCTTCGTTCAGTTCTATCGTGCTTTCGCATTTATCGTGAAACGCTTTCGCGTTTTCGTGCGCCGCTTCAAAGCACATTCGTATTTTTTCTATTGACTCACCTTGAGCCATACCCATAGGGACATAATGAATCCTCTCGAAAAACCCACTGGAGAAAAATTTATCGAACTTTTCCCCAATAAAAGTATGGGTAGCTATTTACATAACCATATCACCTTTGTTCAGAAGTTACAACTATACCAATTAGATGGTCCTTGAAGGGATTTGTGAACTTAACGTTCACTCTTTCTGATGAAAAAACAACAATATTAAGCAGCTCTTGGCTATAGTCATCAGGTGACCATTGGACAAGACTATAAACCCTTTAACAAACTGATTGTTTTCATAGCTTTGCTTGCGGCAAATAACTCTTGTATGTTTATCATGCTTGTCATCCTTAGCCCAGACTGCTGTGGTTATAAGGCAATGTTCTTGCTTTGTTGGCGCACTACGTTCAAAAAAATCTTTCAACTTAAGCTTTCTTGAATTAAAAAGATAATCCACCATGCTTCAAGCTCTGCAATTGAAGAAGTTAATATTAAAGAAGCATGGTGGCTAGCTTCTTCTGATGATAAGGCATCATCAGGGGATAGA\r\n+>0846a7b6-b5ff-42ef-950f-f344a311c521_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read1965 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode02/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read1965.fast5\r\n+CTTGTACTTCGTTCGGTTACGTATTGCTTCGATTCCGTTTGTAGTCGTCGTGTTTTCGCATTTATCGTGAAACGCTTTTCGCGTTTTCATCGCCTTCAGCAAGGAAGGTAAATCCATACGTCGTCGAAACGCTTTGTGAGTCGGGGCGGCGTCTGAGGAAGTAATCCGTGAGTTCTGGGTTAGGGTTTTGCATATATTTACCGTCCCGCTGCTGGGCGATGGCTCATTGTTATCATTGCCGTATCATCACCTGTTGGTTGTCGCTTCTGAATCAATTTCTGCAGGTGATGCACCCCCAAACGATGGCCGTCGTTGCGGGGGGGTCGCTTTAAAACGACCGCAGAATACTTCAAAACCTTCTACAACGCAAAATAAAGCCCCAGCCTTGGTACGCAAGGCTTGATGCCATTTTTTTATCGCCAGGTTGTCCCTTAAGTATAAATGGGATCGCGCGCGGATCAGACCAACCATTCAACGCCCACCTGCAAAACTGCCACAACGCGAGGCGAAACAGCAACATCAACGCACTATCAACATGATTAGAACTATAAAAACATAACAGCCTCACTCGAGTAGATTGGGTAAATCTATTTAGTCTGTGATTTGCGAACCATACTTTTCGCATCACGACAGAACCAACTCCATTCGTTCTGGTTGTCTCGATATAGGCAATTAAAAACCGTCTTCGGGTGGTTGGCTATATGAATCCAACCACCTCCTTCTTTTCAATCCCAGCAATGTCGTCAATCACTAAATCGGAACCCACTGGCAAGCCAGCGGGACCTGATTTGAGTTTGACGATTTCGGAAAACTTGGCTGGCAGATTTTTTAATCTGACTGCGCAGAAGTGTGAATGATCGGGCGCAGCCCTGACAGATCGTTTTAACGCCGACATCGTGATGGCGGTGTGCCAAAACACATCTTCCAATCCCAACTGAGTTCGGAAACCCGTTCAGTAATTAGTGAGCACGTCACTTTGCGGCGTTAGCCTATCACCATCGGGTAGAACCAATAGGACAAGATGTGTTTTTGGAGTACCGACAACGGCGCCCTCTCAAAAAAATAAGTGGTCGGGGCTGCGCGACACTAATCTGATTCAGCTTTATCTTTTGACGGCGAGCGACGGTACTTTTGATTCGGTTTTCAAAAGCAATGCGTGAGACATCATCATCTCGCTGATATCAATGCAGAATTGCCATATCGGCATCGGTTTCTGATCGAGGTTTCGAGTATGTCTTTATGCGCCACCGGTGACACAAATCCGGCGCTTATGTATATAGCAGTCAATTCGAGACCATTCGTCAGCAACCATGTCAGCCGGCTTCTCCGTGGAATATTTCAGGGTTTCAGCCACTGCGCCCGTACAAGTTCGCAGTTCTGAAGCCAATGATTCTCCGTCATAGGCTTGCGGGGTTTTACTGCTCGAACATCAACATTCGGATCGCCAATTCACCAAACCTCTCTTAAGCTCTGCCCAGCGGTCATGTTTAACGTAATCTCGCGTGAACGTGAGGAGGAACCATCATCAAGTGTGAAAGTGCGGGTGCGCACTACCGTCACTTCCACGTGTGGCTTCCGTGGTGCGGATCAGCCCTGAACAGGTCGAAGCGTTCACTTTGCGATCCTTAAGTCTTTGGAAGATACTGCATTCGGTTAAGTGTCTGCCCATTTCCCCCGATCGCGCGGTTTCGCACTGTGAGGGTCAGGAACATCCGGCGATGCATCTGGATAATCCGCAACAATACGCGGCGAGGACTGATATTGAACTGCCATCGGGATCGCGCTCCGCGGCAGACGGGACGGTGCCGGACGCAGCAGAAATGCGCCTCACGTAGCTAAGGCGGTTTCTCCAGTTTCTTTGGTGAATAGCAAACCTCAGTAAACCGCCACAGGAACTGCCACGCGCCCCA\r\n+>c9cf0f87-b530-42eb-baba-d2f7bf184d51_Basecall_1D_template DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2166 /backup2/RawData/nanopore/20170426-nano1/Basecall/workspace/barcode02/0/DESKTOP_HT0CTEN_20170425_FNFAE23458_MN19144_sequencing_run_Rap_Bar_nano1_95462_ch100_read2166.fast5\r\n+TTGGTACTTCGTTCCAGTTACGTATTGCTTCGATTCCGTTTGGTCGTCTGTGTTTTCGCATTTATCGTGAAACGCTTTCGCGTTTTCGTGCGCCGCTTCATCCTGTCTGCCAATGGAGGCGATCCCCTGATGTGGCAAGCCCGTTTTATCAGTCCTGCTGGACCATTGTTGGATTGTCAGATGCGGATGTTCTGACCCTCCACAGTGCGAAGCTTACCGTCGGGGGAATTGGGTGAACGCAACGAATGAACATGGCCTTCCAGCGACTAGGATCGCAAGTTTCATTCATTTCAGGGCTGGATCCGCACCACGGAAGTGCACGTGGAAGTGACTGGTAGTACCACCCGCACTGCACACTCTGATGTCGTTCCTCCCTCAATGTTCACGCGAGGATTACGTTAAAACGCGTGCGCTGAAGCTTTGGCGAAGGTGTTTGCGTGAGATTACG'..b'GTTTATTTTTAATGTCCAGATGGTTTAATATCCATTTATATGTATTAGCTGTATGGATAGTACTTTGGTTTTATTGTATAACTTGTTTTTTTTTATTGTTTTATTGGTGTGTAATCTTTAAGTTAAAAACGCTTGAATACCGGGGCAAAAGTAGGAAAAGCAAATGGATACTCGGTTGTGTGACTTTTAAACTAATGGAACTATAGAGTGGAGGTTGTTACAGTCGCTTTTATAAAACAGCAACCAGTTTTTTCCAATAGTCTGATGATGGTTGTGACAGTTTTATCGATATTGTTCAAAAATGTTTCTTGTTGAATGTTTTTGGTCTATTGGTGTCTGGTTTTATTTTTCTGCTATTACATATCAAGAAATGTGATTGGTGTAACAGAGTGGAATGCGATGTGGATAAACTAATTGGTTGTCGAATCTAAGAACTTTACTTAGAAAACTACACTTGTTTTTGTGTATGGGTTGTTAGTAATTTGATACTGTCTATGTGTTTTCGTGCATTTATAAATCCTTCGTCAGGATCTTAAATTTTATTGTTGATGTGTAGGGCCTGTACGGTAATTGTAGCTACTTCATCGTTGTTCGAACACAACCAACAACCTGTTGTTTCTCTTGGTTCCCCACTTTTGACGGGGTTTTATCTCTTCCGTGCATCGTAAAAAGCAGGACTCCTTCTAAACTGTTTAAGGGCATCACTAGAGCATTTTGCGTTGTGATATTGAGCATCCGATAACTAAATATTTCCATAGACTCTGATTCTTGCCACCGACCGGGTCGGTTTTGTCTGGCGAGATGTGAAGTTTGGGCTGGAAACCCCGTCAGGCGCACCGGGGGGGGAGAAAACATCGTTTTGAGCCGTTCGGTGTTCCAGAACGCACAGGCTCGATCTTTATCGCTTTCGTGCATGGTTATGCAACGCCCTGAAACGGTCTGACGCGTTTTTCTGGTTTGGCTGGTGTTTTCTTGTCTTTTGCGTTTTTGCGCCAGAAAGCGACTGAGGGCGTTTTAGAGTACAACAGGGTATGGTAAATGGATCGGGTTTTGGGAGTTCGACAGGATTTGCCGTTGGGTGTGATGTAAACGACTTGAAAAAAACAAACGCCCTGAAACCATGTCAGATCAGATTCAACATAAAGCCAGAGGAGCGTGTAGGTCGCATAACCGGAAGATCGTAACACATGAGCACGCCGCCTTCAACCACTTCGACGAAAATTTACTATCTATCTTTACGGATGATCTCGCTTTTGGTCTTCGCATCTCCGGCAAGGGCGTGCTTCTTGCGCAGTACGCTGGCAGAACAGCCTCATGCGCAGTTCTGGCCAGTTTGATTGACCGCGAGGGCTGCGGTGACTGGAGCGACGGAACGCTCCCGCATGAACATCACCGTTAAAAATCTGTGAAACCGGACGCTCACCTGCTCTACGCACTTTAACATCGCCGTGAACCGCGCCTGATGCCTCGGTTAAAGGCGCTGAAATATCTTCCGCGGTTGAACGTTCGCTGTGTGAAACTGCGGATGTGAACTACAGCGGCCTGATTTTGCAAATCCGTTCCACGGAATGGCTGGTGATGGAGCGCGAGGCTATACCCTCGATGAACTGGCTGATATCTCGATTTGAAGAGCGCCTCAGAGCGTCGTAGCATCGATAAACATTACGGGATGAGGGCGAAACTGCCACCTGTTCGAAATGACGCGCAAATGGGCTTACAGGAGCGATTCGTGCATGACCAGCGTTCTCTGATGTGAAGTGATCCAGCGTGTCGAAATGTACAATGCGCTTCCCGTTCCGCTTTCACTGGCTGAATGTCGGGCTATTGGCGAAACATTGCGAAACCACACTGAACTCCACGCCGGAAACTTTCGCTGGTATGTGGCTGATACGCACACGCCAGAAATTCAGGCTGCACGGTCGCAAGGGCGGTTCTAAGTCACGGCGCAGCACAGTAGCTGCGCACGCTGAAACCGTGGGAGGCATTAAGGGGATCGTCGCGCACGGTGGCGTACCAACTGAAAAAACGAATTATATTAAGTGGGCAAACAAGCCTATATCAGATAACCAGCGCCTTTCAGCGTCTTTTGAGCAGGTTTGCACGTTCAGCCTGCAATGGCGGCTTTCCGCGTGATTGTGGTGGTAGTGCTCGCCGCAGTCTCATGACCGAGCGTAGCGACGAATGAAACGAGGAAGCCTGGAATAGATCGGAGGTTACAGATGGAGGCACTTGCGCGTCTGGGTTTTGGGGATGTCTCCCAGATCGTACTTCGCTAAGTGCTGTAATCTGTCTTTTTTTTATGGCATGACTCGCCTGTTTTGTGTCTACCAGTCCTGCTTCGATCAGTAGCCCAGCCGCGAAAGAACGGTGATTGCGATTCCCGTCATTGTTTTTTCCCTCGATTCGTTTTTGGACCGCAACCTGTTTTCGTTCTTTCTCCTGTGCCTGTAAGTCGTTTTATTTGCCGAACGTGGAAGTTTGCGTTCCTGTTCTGTGAGTTACAGCTTCGTTGTCGATCGGTCAATAATCTGTCTCTGTCGTGCGGTCTGTTCTCGAAACTTCCTGATGAATCCAGTACGTTTCTTCAGCCATTCGATGTTGCTGATGCGCTTCGTGATGCTCTGGTGTTTTTTTTGCGGTGTGTTGTGGTCGTGCAGTATCTTTTGGGTCGGCAGGTACGGGGGGTATCTTCCGTGCTAATTCGTAAAATTAGAAGGAAGCGCACTTATATATCACTTCGTCGAAAACAGTGCGCTCCTGCAGAGAAACAAACGGCTTATCACCTCAGCGTTAGAATTTGGTAAGCAGGAGCGGGCGCAAACCACGCCGATTACATCGACGCAAAGAAAGCTTCGCGACCGTCAGGATTTGGAGCCATTCCGCACACGATGCGGGAATGGGCGAGGATAATCCTTCCATTTCACGGCGGCGGTTGGTTGAACGATACTGGTGGTTCGACTAAAGGGCAAGTACGTACCGTGAACTGACACCAGGTGCTTGCCTTGAACTGGTGCAGGATTTTGTACGTCAAGTGGCGAACGGCACACTGAGTTTGCCATTCACAATCCAGCGGCATTGACGGCGAACAGCCTCATGCGCATATCATGATGAGTCAGCGTGTGAATGATGGCGTTGAACGTACGTAGTATTTCGGCGCTATGTACCGGTATCCCGAGCAGGGGAGGTGCGAAAAAAAAGTTCGAAGCCGACTCTCACTCAGCAAAAAGTGGATTGCGGGGTGCGAAAACGCTGGGAGGTGGCGGAACATATGGCTATGGCTGAAAGGGCTTCATTGACTGCCGGACGCTGAAGAACAGAGACGTAGACGACACGTCCCGAAGTGCATCTGGGTTTCAAGCTGCTGACGTGATGATAGCAACGTCATGACATCGTAAAAACGGTCTGAACCGGACTATTCCCGCCATGAACAGGCGCGAACGGTCAGGCATGACATCAGGGAATGGCTGGACACTCCAGTTAACAACATGAACTGGTCAGAAAGGCGCAACATGATGTTGCGCGGGAGCATGGCTTTGACATGAGACAAGTGAACAGACCGAACTGCACCTGAACGGGTTGTCAACCGTCGTGGATTTCTATGGGATTCTGAACAGCCTGAAGAAAAATTACACGCTCCTGTTATCGGTGGAGCATCTGCAACATACCGCAATGGAGCAACAGAAGAAAACTGTTGCTGATTCTCTGGCTGTGGCAAGGAAACTCTTCGCGAGATATCAGGATATTTCTGACGGTGGCAAACAGGTCGGAGTTAAGTCAATGGTTAAGAAGCTGGACGCTTGAGACTGATGGCTTATCAGCAGACCCTCTTGGCCTGGAAGAAGTCAGTCCATATAAACTCGCCTGAACAAGGATATTCTATATCGATACGAATGCTTTCTACTCAAGATGCTAAATAAGCTGGAAATGAGGTAATCAATCGTAGTTATGTTCTATCAGATGGAATAATTTCAAATGTCTCCGTCAATATCAAATAATA\r\n'