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| author | Zachary Sloan | 2013-07-09 17:07:13 -0500 |
|---|---|---|
| committer | Zachary Sloan | 2013-07-09 17:07:13 -0500 |
| commit | c0b7da4b4c2bd98353eb980402075318010a79a3 (patch) | |
| tree | 52d6b2f29069b34a8b8940950f55ca3fbd451a36 | |
| parent | 05814fb8654d6479657db55c20a2d4851a7db931 (diff) | |
| download | genenetwork2-c0b7da4b4c2bd98353eb980402075318010a79a3.tar.gz | |
Committing installation notes before editing them more
| -rw-r--r-- | misc/gn_installation_notes.txt | 24 | ||||
| -rw-r--r-- | misc/requirements.txt | 4 | ||||
| -rw-r--r-- | wqflask/requirements.txt | 17 |
3 files changed, 20 insertions, 25 deletions
diff --git a/misc/gn_installation_notes.txt b/misc/gn_installation_notes.txt index 2607f2b5..e31273b1 100644 --- a/misc/gn_installation_notes.txt +++ b/misc/gn_installation_notes.txt @@ -52,8 +52,23 @@ apt-file search _______ Install pip: sudo apt-get install python-pip -Install from requirements.txt: -pip install -r gene/wqflask/requirements.txt -t ve27 +REMEMBER TO SOURCE VE BEFORE INSTALLING + +Comment out in requirements.txt: +Reaper +numarray + +Install from requirements.txt (after activating virtualenv): +pip install -r gene/misc/requirements.txt + +When it hits error with install MySQL-Python, install libmysqlclient-dev: +sudo apt-get install libmysqlclient-dev + +When hits error with numpy install python-dev: +sudo apt-get install python-dev + +When hits error with scipy: +sudo apt-get install libatlas-base-dev gfortran g++ ============================================ @@ -116,10 +131,7 @@ Installing QTL Reaper wget http://downloads.sourceforge.net/project/qtlreaper/qtlreaper/1.1.1/qtlreaper-1.1.1.tar.gz?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fqtlreaper%2Ffiles%2Flatest%2Fdownload&ts=1358975786&use_mirror=iweb mv -v qtlreaper-1.1.1.tar.gz?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fqtlreaper%2Ffiles%2Flatest%2Fdownload&ts=1358975786&use_mirror=iweb qtlreaper-1.1.1.tar.gz tar xvf qtlreaper-1.1.1.tar.gz (to unzip) -python setup.py build -sudo mkdir /home/zas1024/ve27/include/python2.7/Reaper -sudo chown /home/zas1024/ve27/include/python2.7/Reaper (or whereever the directory is; the problem -involved the fact that doing "sudo python setup.py install" doesn't install within the virtualenv) +mkdir /home/zas1024/ve27/include/python2.7/Reaper python setup.py install =========================================== diff --git a/misc/requirements.txt b/misc/requirements.txt index 0e892c05..ec02a2c2 100644 --- a/misc/requirements.txt +++ b/misc/requirements.txt @@ -9,7 +9,7 @@ Flask-WTF==0.8.3 Jinja2==2.6 MySQL-python==1.2.4 PyYAML==3.10 -Reaper==1.0 +#Reaper==1.0 Reindent==0.1.1 SQLAlchemy==0.8.0 WTForms==1.0.3 @@ -21,7 +21,7 @@ itsdangerous==0.17 logging-tree==1.2 logilab-astng==0.24.3 logilab-common==0.59.1 -numarray==1.5.2 +#numarray==1.5.2 numpy==1.7.0 passlib==1.6.1 pp==1.6.3 diff --git a/wqflask/requirements.txt b/wqflask/requirements.txt deleted file mode 100644 index 4449c0e7..00000000 --- a/wqflask/requirements.txt +++ /dev/null @@ -1,17 +0,0 @@ -Flask==0.9 -Jinja2==2.6 -#MySQL-python==1.2.3 -Piddle==0.1-dev -PyYAML==3.10 -SQLAlchemy==0.7.9 -Werkzeug==0.8.3 -logging-tree==1.1 -nose==1.2.1 -numpy==1.6.2 -pp==1.6.3 -requests==0.13.3 -rpy2==2.3.1 -scipy==0.11.0 -simplejson==2.6.2 -wsgiref==0.1.2 -yolk==0.4.3 |