Hi,
I have recently started using the Roary dependency on Galaxy Eu. I have been able to visualize small datasets with the phandango webpage but when using a large dataset (540 MB) and I keep getting the same message on the screen :
The tree file loads well but I cant seem to load the .csv file . I have tried the minimiseROARY.py script but I also get this error:
(base) guillermo@guillermo-VirtualBox:~/phandango/scripts$python minimiseROARY.py -i Gene_Presence_Absence.csv -o Small.csv/home/guillermo/phandango/scripts/minimiseROARY.py:30: DeprecationWarning: 'U' mode is deprecated
with open(args.fileIn, "rU") as fhi:
Traceback (most recent call last):
File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 40, in
main()
File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 35, in main
fho.write(','.join(splitLine(line)) + "\n");
File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 23, in splitLine
for idx in xrange(0, len(fields)):
NameError: name 'xrange' is not defined
I am still quite new to the bioinfomatics world so I apologize in advance for any dumb questions and/ or mistakes.
Thank you for your time
PS: I'm gonna leave here the links with my files in case it helps
Hi, I have recently started using the Roary dependency on Galaxy Eu. I have been able to visualize small datasets with the phandango webpage but when using a large dataset (540 MB) and I keep getting the same message on the screen :
Input error. File: Gene_Presence_Absence.csv TypeError: Cannot read property 'length' of undefined
The tree file loads well but I cant seem to load the .csv file . I have tried the minimiseROARY.py script but I also get this error:
(base) guillermo@guillermo-VirtualBox:~/phandango/scripts$
main()
File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 35, in main
fho.write(','.join(splitLine(line)) + "\n");
File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 23, in splitLine
for idx in xrange(0, len(fields)):
NameError: name 'xrange' is not defined
python minimiseROARY.py -i Gene_Presence_Absence.csv -o Small.csv/home/guillermo/phandango/scripts/minimiseROARY.py:30: DeprecationWarning: 'U' mode is deprecated with open(args.fileIn, "rU") as fhi: Traceback (most recent call last): File "/home/guillermo/phandango/scripts/minimiseROARY.py", line 40, inI am still quite new to the bioinfomatics world so I apologize in advance for any dumb questions and/ or mistakes. Thank you for your time
PS: I'm gonna leave here the links with my files in case it helps
https://drive.google.com/file/d/1Y9t_qz6SnRBYv6h8tCbNEmMK9kgbKiYY/view?usp=sharing https://drive.google.com/file/d/1PmnEq3WjwvCQY4pwpTqO12hx9YnydYqU/view?usp=sharing