def g_create_dir(dirname):
res = SH.cmd('galaxy shell mkdir %s' % shell.escape(dirname))
if not g_has_dir(dirname):
error("Failed to create directory: %s" % dirname)
error(SH.apply_aliases('galaxy shell mkdir %s' % shell.escape(dirname)))
error(res)
else:
log("Successfully created directory: %s" % dirname)
def push_to(i_fname, g_dirname, g_filename):
i_fname = shell.escape(i_fname)
g_dirname = shell.escape(g_dirname)
res = SH.cmd('galaxy push %(i_fname)s %(g_dirname)s' % locals())
if not g_has_file(g_filename):
error("Failed to push file: %s" % g_filename)
error(SH.apply_aliases('galaxy push %(i_fname)s %(g_dirname)s' % locals()))
error(res)
else:
log("Successfully pushed %s to %s.\n" % (i_fname, g_dirname))
def check_exists(string, flag):
path = shell.escape(string)
cmd = "if [ %s %s ]; then echo 'Exists'; else echo 'Not found'; fi" % (
flag, path)
command = 'galaxy shell "%s"' % cmd
aliased = SH.apply_aliases(command)
res = SH.cmd(command)
if 'Exists' in res:
return True
elif 'Not found' in res:
return False
else:
error("Invalid result from command %s" % aliased)
error(res)
def export(self, destTag, destSince, userComment):
self.exportTag = destTag
self.exportSince = str(destSince)
# We could use a list for Popen to avoid escaping and shell=True,
# but this way it is easier to read in the logs and we get a working
# command that could be copied and rerun easily
command = "cmscond_export_iov" + \
" -s " + shell.escape(self.srcDB) + \
" -i " + shell.escape(self.inputTag) + \
" -d " + shell.escape(self.exportDB) + \
" -t " + shell.escape(self.exportTag) + \
" -b " + shell.escape(self.exportSince) + \
" -l " + shell.escape(self.logDB) +\
" -x " + shell.escape(userComment) + \
" -P " + shell.escape(self.authpath)
return self.executeAndLog(command, True)
def export(self, destTag, destSince, userComment ):
self.exportTag = destTag
self.exportSince = str(destSince)
# We could use a list for Popen to avoid escaping and shell=True,
# but this way it is easier to read in the logs and we get a working
# command that could be copied and rerun easily
command = "cmscond_export_iov" + \
" -s " + shell.escape(self.srcDB) + \
" -i " + shell.escape(self.inputTag) + \
" -d " + shell.escape(self.exportDB) + \
" -t " + shell.escape(self.exportTag) + \
" -b " + shell.escape(self.exportSince) + \
" -l " + shell.escape(self.logDB) +\
" -x " + shell.escape(userComment) + \
" -P " + shell.escape(self.authpath)
return self.executeAndLog( command, True )
def duplicate(self, destTag, destSince):
duplicateSince = str(destSince)
if (self.exportTag == None):
self.fileLogger.error('Tag Export has not been done.')
return False
# Same note as for the export command (see above)
command = "cmscond_duplicate_iov" + \
" -c " + shell.escape(self.exportDB) + \
" -t " + shell.escape(self.exportTag) + \
" -f " + shell.escape(self.exportSince) + \
" -d " + shell.escape(destTag) + \
" -s " + shell.escape(duplicateSince) + \
" -l " + shell.escape(self.logDB) +\
" -P " + shell.escape(self.authpath)
return self.executeAndLog(command, True)
def duplicate(self, destTag, destSince):
duplicateSince = str(destSince)
if( self.exportTag == None ):
self.fileLogger.error('Tag Export has not been done.')
return False
# Same note as for the export command (see above)
command = "cmscond_duplicate_iov" + \
" -c " + shell.escape(self.exportDB) + \
" -t " + shell.escape(self.exportTag) + \
" -f " + shell.escape(self.exportSince) + \
" -d " + shell.escape(destTag) + \
" -s " + shell.escape(duplicateSince) + \
" -l " + shell.escape(self.logDB) +\
" -P " + shell.escape(self.authpath)
return self.executeAndLog( command, True )