diff options
Diffstat (limited to 'scripts/maintenance/readProbeSetSE_v7.py')
| -rwxr-xr-x | scripts/maintenance/readProbeSetSE_v7.py | 14 |
1 files changed, 7 insertions, 7 deletions
diff --git a/scripts/maintenance/readProbeSetSE_v7.py b/scripts/maintenance/readProbeSetSE_v7.py index 20a846a4..edd9e7b0 100755 --- a/scripts/maintenance/readProbeSetSE_v7.py +++ b/scripts/maintenance/readProbeSetSE_v7.py @@ -71,14 +71,14 @@ print('Checking if each line have same number of members') GeneList = [] isCont = 1 header = fp.readline() -header = string.split(string.strip(header), '\t') +header = header.strip().split('\t') header = list(map(string.strip, header)) nfield = len(header) line = fp.readline() kj = 0 while line: - line2 = string.split(string.strip(line), '\t') + line2 = line.strip().split('\t') line2 = list(map(string.strip, line2)) if len(line2) != nfield: isCont = 0 @@ -109,7 +109,7 @@ print('Checking if each strain exist in database') isCont = 1 fp.seek(0) header = fp.readline() -header = string.split(string.strip(header), '\t') +header = header.strip().split('\t') header = list(map(string.strip, header)) header = list(map(translateAlias, header)) header = header[dataStart:] @@ -137,8 +137,8 @@ print('Check if each ProbeSet exist in database') ##---- find PID is name or target ----## line = fp.readline() line = fp.readline() -line2 = string.split(string.strip(line), '\t') -line2 = list(map(string.strip, line2)) +line2 = line.strip().split('\t') +line2 = [x.strip() for x in line2] PId = line2[0] db.execute('select Id from ProbeSet where Name="%s" and ChipId=%d' % @@ -217,8 +217,8 @@ line = fp.readline() kj = 0 while line: - line2 = string.split(string.strip(line), '\t') - line2 = list(map(string.strip, line2)) + line2 = line.strip().split('\t') + line2 = [x.strip() for x in line2] CellId = line2[0] if CellId not in ProbeNameId: |