no zip

README.md

@@ -6,11 +6,11 @@ task_categories:
 license: cc-by-4.0
 configs:
 - config_name: rat_SD
-  data_files: "rat_SD.tar.gz"
+  data_files: "rat_SD/*.parquet"
 - config_name: mouse_BALB_c
-  data_files: "mouse_BALB_c.tar.gz"
+  data_files: "mouse_BALB_c/*.parquet"
 - config_name: mouse_C57BL_6
-  data_files: "mouse_C57BL_6.tar.gz"
+  data_files: "mouse_C57BL_6/*.parquet"
 ---
 
 # Dataset Card for OAS Paired Sequence Data

mouse_BALB_c.tar.gz → mouse_BALB_c/train_0.parquet

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:876fdae8478963175654c9d9ed7a8d97847e002b92c3112ee730eddff24118cf
-size 114634
+oid sha256:a8ac63db59c5a3cf6f053da0db6fc434e2922bac63657eda7858ca7657922c89
+size 156176

mouse_C57BL_6.tar.gz → mouse_BALB_c/train_1.parquet

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:d87e773f30d1ee949d46b2042603b2a060223db87be6309ee22aedbbab227290
-size 130209
+oid sha256:6c570433b3c64ae62a5c5ec8279dd8bc34dcf5d47af5e5090e83f0bbc292c330
+size 172410

rat_SD.tar.gz → mouse_BALB_c/train_2.parquet

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:1c9af9dc3c63df41e091a9d847dd8aa95fdb0d73d81024516916b78c25ee1722
-size 176753
+oid sha256:a06146c42fdb9e0ad0e91dc5b6eab8736d10204cbc3f86515d5abcc25e998f17
+size 156296

mouse_BALB_c/train_3.parquet

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+version https://git-lfs.github.com/spec/v1
+oid sha256:cd224d3cac286411618b5cd7f5fed7303870f61d1096cf8679c35e61b2bc72f4
+size 163793

mouse_BALB_c/train_4.parquet

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+version https://git-lfs.github.com/spec/v1
+oid sha256:9423c06e02292ab6ac57c9559c5c3ca263dc218ea85993682a57833befc78a9e
+size 153176

mouse_BALB_c/train_5.parquet

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+version https://git-lfs.github.com/spec/v1
+oid sha256:f875eada2dca3ae28a6c62321167a34508ef4e13a5e8922026322996ee7986fb
+size 133116

mouse_BALB_c/train_6.parquet

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:5ce63efe38ab5120a45fd9aeeaa18bda4d00efde3b4124182c846cf689a742eb
+size 160865

mouse_BALB_c/train_7.parquet

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+version https://git-lfs.github.com/spec/v1
+oid sha256:3cfa04f5eb5c96a6482cd507a4e87a4052b62286837878613096ac4f94f0f293
+size 139312

mouse_C57BL_6/train_0.parquet

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:5a9fc5bd0cefe73dc3b5630482ed4515cdf0a03ee94b7c0e62540f2849ede36a
+size 174501

mouse_C57BL_6/train_1.parquet

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+version https://git-lfs.github.com/spec/v1
+oid sha256:70e1ccba4a7d98749c6bca45a604e662b957745005374fb92285ccaf09534869
+size 170236

oas-data-cleaning.py

@@ -58,6 +58,7 @@ for species in species_list:
             print(run_data.shape)
             output_path = os.path.join(species, "train_" + str(i) + ".parquet")
             run_data.to_parquet(output_path)
+            i += 1
             # list_of_df.append(run_data)
         # species_df = pd.concat(list_of_df, ignore_index=True)
         # print(f"{species} output summary:")
@@ -65,16 +66,16 @@ for species in species_list:
         # print(species_df.shape)
         # os.makedirs(species, exist_ok=True)
         # species_df.to_parquet(species, partition_cols=["data_unit"])
-        zip_name = species + ".tar.gz"
-        print(f"Creating {zip_name}")
-        with tarfile.open(zip_name, "w:gz") as tf:
-            tf.add(species, arcname="")
+        # zip_name = species + ".tar.gz"
+        # print(f"Creating {zip_name}")
+        # with tarfile.open(zip_name, "w:gz") as tf:
+        #     tf.add(species, arcname="")
         # print(
         #     f"Uploading {zip_name} to {os.path.join('s3://', S3_BUCKET, S3_DEST_PREFIX)}"
         # )
         # s3.upload_file(zip_name, S3_BUCKET, os.path.join(S3_DEST_PREFIX, zip_name))
-        print(f"Removing {species}")
-        shutil.rmtree(species)
+        # print(f"Removing {species}")
+        # shutil.rmtree(species)
         # print(f"Removing {zip_name}")
         # os.remove(zip_name)
 

rat_SD/train_0.parquet

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+size 275069

rat_SD/train_1.parquet

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+size 260187

rat_SD/train_10.parquet

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+size 176650

rat_SD/train_11.parquet

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+size 241995

rat_SD/train_12.parquet

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+size 226856

rat_SD/train_13.parquet

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rat_SD/train_14.parquet

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rat_SD/train_15.parquet

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+size 220482

rat_SD/train_16.parquet

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+size 204438

rat_SD/train_17.parquet

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+size 215468

rat_SD/train_18.parquet

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rat_SD/train_19.parquet

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rat_SD/train_2.parquet

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rat_SD/train_3.parquet

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rat_SD/train_4.parquet

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+size 231504

rat_SD/train_5.parquet

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rat_SD/train_6.parquet

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rat_SD/train_7.parquet

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rat_SD/train_8.parquet

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rat_SD/train_9.parquet

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