From 1a4d8a3958d9e81ff29651e7ead742dba54ff1ff Mon Sep 17 00:00:00 2001
From: Tetiana Khotiaintseva <tetiana.khotiaintseva@ardigen.com>
Date: Mon, 14 Nov 2016 12:12:29 +0100
Subject: [PATCH] Remove hardcoded endpoint from mount.sh

Reset changes to .gitignore, and add pytest-related dirs.
---
 .gitignore                                | 6 ++++--
 tests/data/automated/run_info-fusion.yaml | 0
 tests/{ => scripts}/goofys_logs.sh        | 0
 tests/{ => scripts}/mount.sh              | 2 +-
 4 files changed, 5 insertions(+), 3 deletions(-)
 mode change 100755 => 100644 tests/data/automated/run_info-fusion.yaml
 rename tests/{ => scripts}/goofys_logs.sh (100%)
 mode change 100755 => 100644
 rename tests/{ => scripts}/mount.sh (88%)
 mode change 100755 => 100644

diff --git a/.gitignore b/.gitignore
index 7a33700ea..dd2e436c8 100644
--- a/.gitignore
+++ b/.gitignore
@@ -5,6 +5,8 @@ bcbio_nextgen.egg-info/
 build/
 docs/_build
 dist/
+tests/data/test_srnaseq/
+tests/unit/bcbio-nextgen-test-data/
 tests/data/100326*
 tests/data/110106*
 tests/data/110221*
@@ -14,7 +16,6 @@ tests/data/tcga_benchmark
 tests/test_automated_output/
 tests/data/automated/*-sorted.bed
 tests/data/variants/S1_S2-combined*
-tests/data/Harvard-inDrop
 cwl/*-workflow
 .DS_Store
 .#*
@@ -23,4 +24,5 @@ cwl/*-workflow
 *~
 \#*
 .idea/
-__pycache__/
+__pycache__
+.coverage
diff --git a/tests/data/automated/run_info-fusion.yaml b/tests/data/automated/run_info-fusion.yaml
old mode 100755
new mode 100644
diff --git a/tests/goofys_logs.sh b/tests/scripts/goofys_logs.sh
old mode 100755
new mode 100644
similarity index 100%
rename from tests/goofys_logs.sh
rename to tests/scripts/goofys_logs.sh
diff --git a/tests/mount.sh b/tests/scripts/mount.sh
old mode 100755
new mode 100644
similarity index 88%
rename from tests/mount.sh
rename to tests/scripts/mount.sh
index 6842ad021..da7f7fa2b
--- a/tests/mount.sh
+++ b/tests/scripts/mount.sh
@@ -11,7 +11,7 @@ else
     echo "Starting syslogd..."
     service rsyslog start
 	echo "Mounting the bucket..."
-	cmd="goofys --endpoint s3.eu-central-1.amazonaws.com --sse $_BUCKET /mnt/$_BUCKET"
+	cmd="goofys --sse $_BUCKET /mnt/$_BUCKET"
 	echo $cmd
 	$cmd
     sleep 1