from typecheck import isstring, issequence
# ---------------------------------------------------------------------------
import setparams as _sg
_params = dict(
FIELDDELIMITER = u',',
RECORDDELIMITER = u'\r\n' if pl.system == 'Windows' else u'\n',
PREFIX = u'',
SUFFIX = u'',
PROLOGUE = u'',
EPILOGUE = u'',
VERBOSE = False,
ENCODING = u'utf8',
)
_sg.setparams(_params)
del _sg, _params
# ---------------------------------------------------------------------------
assert len(FIELDDELIMITER) > 0
assert len(RECORDDELIMITER) > 0
FIELDDELIMITER = FIELDDELIMITER.encode(ENCODING)
RECORDDELIMITER = RECORDDELIMITER.encode(ENCODING)
assert RECORDDELIMITER != FIELDDELIMITER
# ---------------------------------------------------------------------------
def _tolist(x):
return [_tolist(i) for i in x] if issequence(x) else x
# 3. prints the command line to feed to the Command Window of
# Cytoscape's Command Tool plugin to run the script (from 2)
# and thereby generate the png files specified by the xgmml
# files (from 1);
#
# E.g.:
#
# % EXPORTTYPE=png python src/onetime/makexgmml.py
# commandtool run file="/Users/berriz/Work/Sites/hmslincs/src/onetime/makepng"
#
# ---------------------------------------------------------------------------
import setparams as _sp
_params = dict(EXPORTTYPE='svg', SUBDIR='rtk')
_sp.setparams(_params)
del _sp, _params
# ---------------------------------------------------------------------------
SRCDIR = op.dirname(op.abspath(__file__))
BASEDIR = op.normpath(op.join(SRCDIR, '..', '..'))
DATADIR = op.join(BASEDIR, *('data networks data'.split() + [SUBDIR]))
XMLDIR = op.join(BASEDIR, *'data networks xgmml'.split())
for f in gl.glob(op.join(XMLDIR, '*')):
os.remove(f)
IMGDIR = op.join(BASEDIR,
*('django networks static networks img'.split() + [SUBDIR]))
print IMGDIR
SIGNALING = SUBDIR == 'signaling'
from django.conf import settings
__version__ = "$Revision: 24d02504e664 $"
# $Source$
# ---------------------------------------------------------------------------
import setparams as _sg
import os
from shutil import copy
from django.core.exceptions import ObjectDoesNotExist, MultipleObjectsReturned
_params = dict(
VERBOSE=False,
APPNAME='db',
)
_sg.setparams(_params)
del _sg, _params
# ---------------------------------------------------------------------------
logger = logging.getLogger(__name__)
@transaction.commit_on_success
def main(import_file, file_directory, deploy_dir):
"""
Read in the qc events for batches
- version 1 - for small molecule batches
"""
sheet_name = 'Sheet1'
start_row = 0
# and thereby generate the png files specified by the xgmml
# files (from 1);
#
# E.g.:
#
# % EXPORTTYPE=png python src/onetime/makexgmml.py
# commandtool run file="/Users/berriz/Work/Sites/hmslincs/src/onetime/makepng"
#
# ---------------------------------------------------------------------------
import setparams as _sp
_params = dict(
EXPORTTYPE = 'svg',
SUBDIR = 'rtk'
)
_sp.setparams(_params)
del _sp, _params
# ---------------------------------------------------------------------------
SRCDIR = op.dirname(op.abspath(__file__))
BASEDIR = op.normpath(op.join(SRCDIR, '..', '..'))
DATADIR = op.join(BASEDIR, *('data networks data'.split() + [SUBDIR]))
XMLDIR = op.join(BASEDIR, *'data networks xgmml'.split())
for f in gl.glob(op.join(XMLDIR, '*')):
os.remove(f)
IMGDIR = op.join(BASEDIR,
*('django networks static networks img'.split() +
[SUBDIR]))
print IMGDIR
SIGNALING = SUBDIR == 'signaling'
