From 502abb8ecb6a9ab7ae26b82a8028998605883a75 Mon Sep 17 00:00:00 2001 From: Julien Cornut <julien.cornut@hesge.ch> Date: Thu, 25 Feb 2016 08:17:01 +0100 Subject: [PATCH] Automatic Update --- ProcessFASTQ.ipynb | 47 +++++++++++++++++++++++++++++++++++++++------- 1 file changed, 40 insertions(+), 7 deletions(-) diff --git a/ProcessFASTQ.ipynb b/ProcessFASTQ.ipynb index a9e3ecb..2537028 100644 --- a/ProcessFASTQ.ipynb +++ b/ProcessFASTQ.ipynb @@ -208,7 +208,7 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 91, "metadata": { "collapsed": false }, @@ -231,11 +231,22 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 92, "metadata": { "collapsed": false }, - "outputs": [], + "outputs": [ + { + "data": { + "text/plain": [ + "'flowcell384_lane7_pair1_ACTTGA.fastq.gz'" + ] + }, + "execution_count": 92, + "metadata": {}, + "output_type": "execute_result" + } + ], "source": [ "# Copy file from 0-Raws to root dir of notebook to work safer\n", "copyfile(\"0-Raws/\"+fname+\".fastq.gz\", fname+\".fastq.gz\")" @@ -255,11 +266,25 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 93, "metadata": { "collapsed": false }, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "\n", + "flowcell384_lane7_pair1_ACTTGA\n", + "\n", + "@SN279:498:C88PKACXX:7:1109:1643:2231 1:N:0:ACTTGA\n", + "NGAGGTGCACAATCGACCGATCCTGCTGTAGGCACCATCAATAGATCGGAA\n", + "+\n", + "#1:==BDDFDFFFEAFG:FG?0?BBD<?GBF3??F(??C)8=F<FF;=;;;\n" + ] + } + ], "source": [ "%%bash\n", "source ./source\n", @@ -278,11 +303,19 @@ }, { "cell_type": "code", - "execution_count": null, + "execution_count": 94, "metadata": { "collapsed": false }, - "outputs": [], + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "Processing will take approximatively 0 hour(s) 30 minute(s) and 25 second(s)\n" + ] + } + ], "source": [ "# Get file size in bytes\n", "fsize = path.getsize(fname+\".fastq.gz\")\n", -- GitLab