Try #4 at fixing biopython installation

terwill · web-flow · commit 69ee34b24392 · 2022-12-08T14:44:07.000-07:00
diff --git a/alphafold2/AlphaFoldPhenixGUI.ipynb b/alphafold2/AlphaFoldPhenixGUI.ipynb
@@ -235,6 +235,8 @@
         "    'random_seed_iterations','minimum_random_seed_iterations']:\n",
         "  params[p] = locals().get(p,None)\n",
         "\n",
+        "print(\"\\nINSTALLING BIOPYTHON\")\n",
+        "!pip install biopython dm-haiku==0.0.5 ml-collections py3Dmol\n",
         "print(\"\\nINSTALLING JAX 0.3.15\")\n",
         "!pip install jax==0.3.15\n",
         "!pip install jaxlib==0.3.15\n",
@@ -348,4 +350,4 @@
       ]
     }
   ]
-}
+}

Original file line number	Diff line number	Diff line change
`@@ -235,6 +235,8 @@`
`235`	`235`	`" 'random_seed_iterations','minimum_random_seed_iterations']:\n",`
`236`	`236`	`" params[p] = locals().get(p,None)\n",`
`237`	`237`	`"\n",`
	`238`	`+ "print(\"\\nINSTALLING BIOPYTHON\")\n",`
	`239`	`+ "!pip install biopython dm-haiku==0.0.5 ml-collections py3Dmol\n",`
`238`	`240`	`"print(\"\\nINSTALLING JAX 0.3.15\")\n",`
`239`	`241`	`"!pip install jax==0.3.15\n",`
`240`	`242`	`"!pip install jaxlib==0.3.15\n",`
`@@ -348,4 +350,4 @@`
`348`	`350`	`]`
`349`	`351`	`}`
`350`	`352`	`]`
`351`		`-}`
	`353`	`+}`