python3

[irinatu]

Do you consider to adapt the program to python3?

[Psirving]

Hello again! A python3 version is being developed. If you used git clone to install Superfold, you can switch to python3 by typing git checkout python3 from the Superfold directory. It has not been tested in any way yet, so you might encounter errors.

[irinatu]

Hello, unfortunately it is not enough. When I jus run Superfold for python3 version I obtained:
Superfold.py Sim.map
/home/irina/bin/Superfold/Superfold.py:83: DeprecationWarning: 'U' mode is deprecated
for line in open(fIN, "rU").readlines():
Traceback (most recent call last):
File "/home/irina/bin/Superfold/Superfold.py", line 1421, in
main()
File "/home/irina/bin/Superfold/Superfold.py", line 113, in main
args = parseArgs()
File "/home/irina/bin/Superfold/Superfold.py", line 740, in parseArgs
m.update(str(o.mapFile))
TypeError: Strings must be encoded before hashing

After changing "rU" to newline=None or newline='':
Superfold.py Sim.map
Traceback (most recent call last):
File "/home/irina/bin/Superfold/Superfold.py", line 1421, in
main()
File "/home/irina/bin/Superfold/Superfold.py", line 113, in main
args = parseArgs()
File "/home/irina/bin/Superfold/Superfold.py", line 740, in parseArgs
m.update(str(o.mapFile))
TypeError: Strings must be encoded before hashing:

[Psirving]

This has something to do with how strings are encoded in python2 vs python3. Lines 740-747 should be something like m.update(o.variableName.encode('utf-8')) instead of m.update(str(o.variableName)). I can't guarantee that will work or that you won't encounter more errors.

'U' mode was not causing the error, only a warning. Since 'U' mode is the new default, python is telling you that it is not necessary.