From 80f9befe78bad888ad4970bf6b8614b6ce2a7223 Mon Sep 17 00:00:00 2001
From: Julien Cornut <julien.cornut@hesge.ch>
Date: Thu, 25 Feb 2016 08:09:01 +0100
Subject: [PATCH] Automatic Update
---
ProcessFASTQ.ipynb | 31 ++++++++++++++++++++++++++++---
1 file changed, 28 insertions(+), 3 deletions(-)
diff --git a/ProcessFASTQ.ipynb b/ProcessFASTQ.ipynb
index e780db5..b05f509 100644
--- a/ProcessFASTQ.ipynb
+++ b/ProcessFASTQ.ipynb
@@ -95,11 +95,35 @@
},
{
"cell_type": "code",
- "execution_count": null,
+ "execution_count": 74,
"metadata": {
"collapsed": false
},
- "outputs": [],
+ "outputs": [
+ {
+ "name": "stdout",
+ "output_type": "stream",
+ "text": [
+ "\n",
+ "Available files :\n",
+ "\n",
+ "Undetermined_lane7_pair1 \t\t Processsed\n",
+ "flowcell261_lane8_pair1_CAGATC \t\t Processsed\n",
+ "flowcell261_lane8_pair1_TGACCA \t\t Processsed\n",
+ "flowcell362_lane4_pair1_ACAGTG \t\t Processsed\n",
+ "flowcell362_lane4_pair1_ACTTGA \t\t Processsed\n",
+ "flowcell362_lane4_pair1_CAGATC \t\t Processsed\n",
+ "flowcell362_lane4_pair1_TGACCA \t\t Processsed\n",
+ "flowcell362_lane4_pair1_Undetermined \t\t Processsed\n",
+ "flowcell384_lane7_pair1_ACAGTG \t\t Processsed\n",
+ "flowcell384_lane7_pair1_ACTTGA \t\t Processsed\n",
+ "flowcell384_lane7_pair1_CAGATC \t\t Processsed\n",
+ "flowcell384_lane7_pair1_GATCAG \t\t Processsed\n",
+ "flowcell384_lane7_pair1_TGACCA \t\t Processsed\n",
+ "testing \t\t Processsed\n"
+ ]
+ }
+ ],
"source": [
"# This lib is needed to parse fastq easily\n",
"from Bio import SeqIO\n",
@@ -136,7 +160,8 @@
"fn = {n.split('.')[0] for n in listdir(\"0-Raws/\")}\n",
"wn = {n.split('.')[0] for n in listdir(\"7-WIGs/\")}\n",
"\n",
- "lst = (n+\" \\t\\t Processsed\" if n in wn else n for n in sorted(fn))\n",
+ "lst = (n+\" \\t\\t Processsed\" \\\n",
+ " if n+\".P.wig\" or n+\".M.wig\" in wn else n for n in sorted(fn))\n",
"\n",
"for l in lst:\n",
" print(l)\n",
--
GitLab