Unverified Commit 677a26c0 authored by Eric Ma's avatar Eric Ma Committed by GitHub
Browse files

Minor changes to shell commands

Two changes proposed here:

1. We add `bash` before the commands so that they are explicitly run by `bash`; otherwise, they would need to be `chmod +x` before the scripts could be executed standalone.
2. We changed the script names for downloading `mmseq` resources because the script names didn't match up with what's in the `scripts/` directory.
parent 894905b9
......@@ -61,7 +61,7 @@ To install the HH-suite to `/usr/bin`, run
To download DeepMind's pretrained parameters and common ground truth data, run:
```bash
scripts/download_data.sh data/
bash scripts/download_data.sh data/
```
You have two choices for downloading protein databases, depending on whether
......@@ -70,14 +70,14 @@ you want to use DeepMind's MSA generation pipeline (w/ HMMR & HHblits) or
MMseqs2 instead. For the former, run:
```bash
scripts/download_alphafold_dbs.sh data/
bash scripts/download_alphafold_dbs.sh data/
```
For the latter, run:
```bash
scripts/download_mmseqs_databases.sh data/ # downloads .tar files
scripts/prep_mmseqs_databases.sh data/ # unpacks and preps the databases
bash scripts/download_mmseqs_dbs.sh data/ # downloads .tar files
bash scripts/prep_mmseqs_dbs.sh data/ # unpacks and preps the databases
```
Make sure to run the latter command on the machine that will be used for MSA
......
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