Hi all, I have used the below code for analyzing hbonds in my protein, but I am facing the error below. Please provide solution for this error?
python3 readHBmap.py -hbm hbmap.xpm -hbn rg.ndx -f md_0_1.gro -o occupancy.xvg -op pairs.dat -t 80 -dt 100
ERROR: Traceback (most recent call last): File "readHBmap.py", line 295, in startingLine,framesLine,numberFrames,numberHbonds=readFiles().hbmap(hbmap,inputHbmap) File "readHBmap.py", line 208, in hbmap numberFrames=int,framesLine[0] TypeError: 'map' object is not subscriptable
As mentioned by Martin Klvana you need to python version 2.7. Then just use this python2 readHBmap.py [-h] [-hbm HBMAP] [-hbn INDEX] [-f GRO] [-o PLOT] [-op PAIRS] [-t THRESHOLD] [-dt TIMESTEP]. You can refer to README.txt.
Helmi Husaini Zainal Fithri, Martin Klvana
Hi, I have used Python 2.7 version. Now I am now getting an error as follows,
Traceback (most recent call last):
File "readHBmap.py", line 301, in
pairs=readFiles().index(index,numberHbonds)
File "readHBmap.py", line 220, in index
for i in range(indexLine+numberHbonds,indexLine,-1):
TypeError: unsupported operand type(s) for +: 'type' and 'int'.
Can you provide solution?
Krish Raghava,
I'm not sure but please check the gro file. Try to extract the new gro file without water. Then use for -f. Test it with threshold = 0 , t 0. Or can you share the command line that you use?
Hi, I resolved this. This error was because of using '-n' function for calling index (.ndx) instead of '-hbn' in gmx hbond command . After changing, when I used readhbmap.py command, it worked.
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