Merge pull request #35 from PeptoneInc/dev

Dev
PeptoneLtd · May 27, 2022 · d6bbc7a · d6bbc7a
2 parents fd5b568 + 1b61f12
commit d6bbc7a
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Showing 51 changed files with 5 additions and 200,072 deletions.
diff --git a/.gitmodules b/.gitmodules
@@ -0,0 +1,3 @@
+[submodule "esm"]
+	path = esm
+	url = https://github.com/facebookresearch/esm
diff --git a/adopt/embedding.py b/adopt/embedding.py
@@ -50,7 +50,7 @@ def get_representations(fasta_file, repr_dir, msa):
             )
         else:
             bashCommand = (
-                "python esm/extract.py "
+                "python esm/scripts/extract.py "
                 + str(esm_model)
                 + " "
                 + str(fasta_file)

diff --git a/esm b/esm
diff --git a/esm/.flake8 b/esm/.flake8
diff --git a/esm/.git-blame-ignore-revs b/esm/.git-blame-ignore-revs
diff --git a/esm/.github/ISSUE_TEMPLATE/bug.md b/esm/.github/ISSUE_TEMPLATE/bug.md
diff --git a/esm/.gitignore b/esm/.gitignore
diff --git a/esm/CODE_OF_CONDUCT.rst b/esm/CODE_OF_CONDUCT.rst
diff --git a/esm/CONTRIBUTING.md b/esm/CONTRIBUTING.md
diff --git a/esm/LICENSE b/esm/LICENSE