I am trying to pass the output from ImageD11/grid_index_parallel.py into FitAllB for parameter/strain analysis.
I am converting the .map file output by grid_index_parallel into a gff using ubi_to_gff.py from xfab.
I am using that .gff as "res_file" in the FitAllB input file.
I am using the .flt file output by grid_index_parallel as "flt_file" in the FitAllB input file.
I am receiving the following error message:
python2.7/site-packages/FitAllB/check_input.py:1003: RuntimeWarning: divide by zero encountered in double_scalars
errorscale = ia*(1+lenrod*lenrod)/(lenrod*(1-0.25*ia*ia*lenrod*lenrod))
python2.7/site-packages/FitAllB/check_input.py:1006: RuntimeWarning: invalid value encountered in double_scalars
self.errors['rodx%s' %i] = errorscale*abs(self.rod[i][0])
python2.7/site-packages/FitAllB/check_input.py:1007: RuntimeWarning: invalid value encountered in double_scalars
self.errors['rody%s' %i] = errorscale*abs(self.rod[i][1])
python2.7/site-packages/FitAllB/check_input.py:1008: RuntimeWarning: invalid value encountered in double_scalars
self.errors['rodz%s' %i] = errorscale*abs(self.rod[i][2])
python2.7/site-packages/FitAllB/check_input.py:1009: RuntimeWarning: invalid value encountered in double_scalars
self.fitarg['error_rodx%s' %i] = errorscale*abs(self.rod[i][0])
python2.7/site-packages/FitAllB/check_input.py:1010: RuntimeWarning: invalid value encountered in double_scalars
self.fitarg['error_rody%s' %i] = errorscale*abs(self.rod[i][1])
python2.7/site-packages/FitAllB/check_input.py:1011: RuntimeWarning: invalid value encountered in double_scalars
self.fitarg['error_rodz%s' %i] = errorscale*abs(self.rod[i][2])
This doesn't seem to stop the program from running, but it does "hang" for a while and not give any terminal output. As it's running on a cluster that might have something to do with it.
I am trying to pass the output from ImageD11/grid_index_parallel.py into FitAllB for parameter/strain analysis.
I am converting the .map file output by grid_index_parallel into a gff using ubi_to_gff.py from xfab. I am using that .gff as "res_file" in the FitAllB input file. I am using the .flt file output by grid_index_parallel as "flt_file" in the FitAllB input file.
I am receiving the following error message:
Here's the relevant lines in FitAllB input:
Here's the first few lines of the .gff for reference: