binder design shell script error

1. design_ppi.sh and design_ppi_flexible_peptide.sh
   assert any(x is not None for x in (conf.contigmap.inpaint_str_helix, conf.contigmap.inpaint_str_strand, conf.contigmap.inpaint_str_loop))
   AssertionError
   This means we need to provide these configs in the shell scripts.
2. design_ppi_flexible_peptide_with_secondarystructure_specification.sh
   works.
3. design_ppi_scaffolded.sh
   config error, solved by following #273.
4. All partial design shell scripts fail to work with same error as in 1.

RFdiffusion/rfdiffusion/inference/model_runners.py", line 745, in init
assert any(x is not None for x in (conf.contigmap.inpaint_str_helix, conf.contigmap.inpaint_str_strand, conf.contigmap.inpaint_str_loop))

I believe scripts in 1 are simple uses for binder design without specifying the secondary structure. But now they don't work as expected. I don't want to change every design to something like 3. Possibly some changes globally affected the parse or some if statements. Please check.

Start by comparing design_ppi.sh, design_ppi_flexible_peptide.sh, the partial-design scripts, and the working design_ppi_flexible_peptide_with_secondarystructure_specification.sh. Then inspect RFdiffusion/rfdiffusion/inference/model_runners.py around line 745 and review the configuration change referenced by #273. Done means the affected binder-design scripts run without the assertion while retaining their intended configurations.