protein protein interaction Indexeror
Are `EUXXXX` and `12H` sequence names? If so, the [FASTA format](https://en.wikipedia.org/wiki/FASTA_format) requires the following formatting:

```
>EUXXXX
MKMASNDATPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQQNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGGFEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPDVRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPPTVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVL
>12H
MEWNWVVLFLLSLTAGVYAQGQMQQSGAELVKPKLSCKTSGF
```

See https://github.com/deepmind/alphafold#examples for more details. @Augustin-Zidek Yes they are started with > (i added them here as well, but for some reason > is removed from the comment) I see, `>` is a special character in Markdown so it didn't render properly -- I fixed that in your comment. Could you try without spaces before the `>` characters? Could you also post the full command you are using to launch this and the full error? @Augustin-Zidek When i ran the first sequence ( > EUXXXX) alone -monomer pipeline. And it ran fine but when i tried to ran multimer or protein protein interaction pipeline its showed error. 

Full error:
![error](https://user-images.githubusercontent.com/19805255/187233664-ebea41dd-6f8a-479b-ad56-f3efb4f097c8.PNG)

 @Augustin-Zidek input command:

--fasta_paths=input.fasta \
  --max_template_date=2022-08-29 \
  --model_preset=multimer \ The error is clearly coming from the FASTA parser, so there must be something wrong with the FASTA format. 

* Is the listing you provided above exactly what is in the FASTA file (including blank lines, leading/trailing spaces, etc.)? 
* Is the FASTA encoded as ASCII or UTF-8?
Hi, I am new to protein folding area and I am having a little issue with running protein protein interaction with Alphafold. 

My inputs:

```
 >EUXXXX
MKMASNDATPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQQNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGGFEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPDVRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPPTVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVL
 >12H
MEWNWVVLFLLSLTAGVYAQGQMQQSGAELVKPKLSCKTSGF
```


I am having an error:  IndexError: list index out of range (i believe this error is  related to input file formatting). 

Can anyone help with this issue?

