Model versioning (#46)

* versining

* versioning new version

* fix testcases

* fetch metadata data version from model if metadata is not passed and testcase fixes

* correct assert and fixes #39

* notebook updates

* host config

* fix caching names

* versining support and dependecny updates

* bug fix in metadata callback

* modisco version conflict

---------

Co-authored-by: Muhammed Hasan Celik <[email protected]>

Author: MuhammedHasan

.gitignore

@@ -186,3 +186,4 @@ wandb/
 docs/api
 docs/tutorials/example
 docs/wandb
+run_tutorial.s*

docs/tutorials/1-attribution-motif-discovery.ipynb

@@ -122,7 +122,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 2,
+   "execution_count": null,
    "metadata": {},
    "outputs": [
     {
@@ -159,7 +159,7 @@
     }
    ],
    "source": [
-    "! decima attributions --model 0 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes"
+    "! decima attributions --model v1_rep0 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes"
    ]
   },
   {
@@ -311,7 +311,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 8,
+   "execution_count": null,
    "metadata": {},
    "outputs": [
     {
@@ -338,12 +338,12 @@
     }
    ],
    "source": [
-    "! decima attributions-predict --model 0 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes_0"
+    "! decima attributions-predict --model v1_rep0 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes_0"
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": 9,
+   "execution_count": null,
    "metadata": {},
    "outputs": [
     {
@@ -370,7 +370,7 @@
     }
    ],
    "source": [
-    "! decima attributions-predict --model 1 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes_1"
+    "! decima attributions-predict --model v1_rep1 --genes \"SPI1,BRD3\" --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_classical_monoctypes_1"
    ]
   },
   {
@@ -1005,7 +1005,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 18,
+   "execution_count": null,
    "metadata": {},
    "outputs": [
     {
@@ -1041,7 +1041,7 @@
     }
    ],
    "source": [
-    "! decima attributions --model 0 --seqs ../tests/data/seqs.fasta --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_custom_seqs"
+    "! decima attributions --model v1_rep0 --seqs ../tests/data/seqs.fasta --tasks \"cell_type == 'classical monocyte'\" --output-prefix example/output_custom_seqs"
    ]
   },
   {