diff --git a/examples/atlas/sweep_results/Heart_ans.csv b/examples/atlas/sweep_results/Heart_ans.csv index 6b721476..01a51b0c 100644 --- a/examples/atlas/sweep_results/Heart_ans.csv +++ b/examples/atlas/sweep_results/Heart_ans.csv @@ -1,4 +1,4 @@ -Dataset_id,cta_actinn,cta_actinn_best_yaml,cta_actinn_best_res,cta_singlecellnet,cta_singlecellnet_best_yaml,cta_singlecellnet_best_res,cta_scdeepsort,cta_scdeepsort_best_yaml,cta_scdeepsort_best_res,cta_celltypist,cta_celltypist_best_yaml,cta_celltypist_best_res +Dataset_id,cta_actinn,cta_actinn_best_yaml,cta_actinn_best_res,cta_singlecellnet,cta_singlecellnet_best_yaml,cta_singlecellnet_best_res,cta_scdeepsort,cta_scdeepsort_best_yaml,cta_scdeepsort_best_res,cta_celltypist,cta_celltypist_best_yaml,cta_celltypist_best_res,cta_scdeepsort_run_stats 5a11f879-d1ef-458a-910c-9b0bdfca5ebf,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/uvd74lau|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/j8nt0tvf,https://wandb.ai/xzy11632/dance-dev/sweeps/30givefv,https://wandb.ai/xzy11632/dance-dev/sweeps/ce943o71","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -78,7 +78,7 @@ Dataset_id,cta_actinn,cta_actinn_best_yaml,cta_actinn_best_res,cta_singlecellnet config_dict: feature_channel: feature.cell label_channel: cell_type -",0.948853611946106 +",0.948853611946106, c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/varlsjin|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/59ahqx3h,https://wandb.ai/xzy11632/dance-dev/sweeps/gbsb3rwm,https://wandb.ai/xzy11632/dance-dev/sweeps/tn2ract9","- type: filter.gene target: FilterGenesPercentile params: {} @@ -134,7 +134,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",0.8317757248878479,,, +",0.8317757248878479,,,,all_total_runs:210|all_finished_runs:148|step2_total_runs:150|step2_finished_runs:114|step3_0_total_runs:20|step3_0_finished_runs:13|step3_1_total_runs:20|step3_1_finished_runs:6|step3_2_total_runs:20|step3_2_finished_runs:15|finished_rate:70.48% 1c739a3e-c3f5-49d5-98e0-73975e751201,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/nc4mh2qv|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/l6b41sk3,https://wandb.ai/xzy11632/dance-dev/sweeps/2n26rwm1,https://wandb.ai/xzy11632/dance-dev/sweeps/bs2h91ra","- type: filter.gene target: FilterGenesPercentile params: @@ -247,7 +247,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.304500013589859 +",0.304500013589859,all_total_runs:210|all_finished_runs:155|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:5|step3_1_total_runs:20|step3_1_finished_runs:17|step3_2_total_runs:20|step3_2_finished_runs:14|finished_rate:73.81% 4ed927e9-c099-49af-b8ce-a2652d069333,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/hw7iu7r7|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/nq363zvg,https://wandb.ai/xzy11632/dance-dev/sweeps/q9ttsvw9,https://wandb.ai/xzy11632/dance-dev/sweeps/tb6ulcb5","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -353,7 +353,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.24899999797344208 +",0.248999997973442,all_total_runs:210|all_finished_runs:160|step2_total_runs:150|step2_finished_runs:113|step3_0_total_runs:20|step3_0_finished_runs:14|step3_1_total_runs:20|step3_1_finished_runs:19|step3_2_total_runs:20|step3_2_finished_runs:14|finished_rate:76.19% 83b5e943-a1d5-4164-b3f2-f7a37f01b524,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/8jryp9lp|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/ukwfwav1,https://wandb.ai/xzy11632/dance-dev/sweeps/fufwxjwm,https://wandb.ai/xzy11632/dance-dev/sweeps/f601wnp4","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -447,7 +447,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:210|all_finished_runs:156|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:15|step3_1_total_runs:20|step3_1_finished_runs:20|step3_2_total_runs:20|step3_2_finished_runs:2|finished_rate:74.29% 97a17473-e2b1-4f31-a544-44a60773e2dd,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/twupybq1|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/fhdtfxvs,https://wandb.ai/xzy11632/dance-dev/sweeps/p0i060ck,https://wandb.ai/xzy11632/dance-dev/sweeps/rdft757u","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -540,7 +540,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:196|all_finished_runs:127|step2_total_runs:150|step2_finished_runs:107|step3_0_total_runs:20|step3_0_finished_runs:13|step3_1_total_runs:20|step3_1_finished_runs:7|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:64.80% 572f3f3e-d3e4-4d13-8e2b-88215e508481,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/dllmfk0t|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/pdu1htvk,https://wandb.ai/xzy11632/dance-dev/sweeps/9mfsvnog,https://wandb.ai/xzy11632/dance-dev/sweeps/fohrpha2","- type: filter.gene target: FilterGenesPercentile params: {} @@ -648,7 +648,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.387499988079071 +",0.387499988079071,all_total_runs:210|all_finished_runs:178|step2_total_runs:150|step2_finished_runs:120|step3_0_total_runs:20|step3_0_finished_runs:20|step3_1_total_runs:20|step3_1_finished_runs:18|step3_2_total_runs:20|step3_2_finished_runs:20|finished_rate:84.76% 1009f384-b12d-448e-ba9f-1b7d2ecfbb4e,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/gwh6la6w|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/3vsbqktb,https://wandb.ai/xzy11632/dance-dev/sweeps/xt9unkek,https://wandb.ai/xzy11632/dance-dev/sweeps/kb3pvbli","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -732,7 +732,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:196|all_finished_runs:159|step2_total_runs:150|step2_finished_runs:127|step3_0_total_runs:20|step3_0_finished_runs:14|step3_1_total_runs:20|step3_1_finished_runs:18|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:81.12% 1062c0f2-2a44-4cf9-a7c8-b5ed58b4728d,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/jkth4zsc|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/1ashimrr,https://wandb.ai/xzy11632/dance-dev/sweeps/njjv7gqk,https://wandb.ai/xzy11632/dance-dev/sweeps/gmq97c11","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -806,7 +806,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:210|all_finished_runs:172|step2_total_runs:150|step2_finished_runs:118|step3_0_total_runs:20|step3_0_finished_runs:16|step3_1_total_runs:20|step3_1_finished_runs:20|step3_2_total_runs:20|step3_2_finished_runs:18|finished_rate:81.90% 1252c5fb-945f-42d6-b1a8-8a3bd864384b,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/gxfub92q|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/zwovjdz3,https://wandb.ai/xzy11632/dance-dev/sweeps/euthmoud,https://wandb.ai/xzy11632/dance-dev/sweeps/xiyyfe6c","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -891,7 +891,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:182|all_finished_runs:144|step2_total_runs:150|step2_finished_runs:131|step3_0_total_runs:20|step3_0_finished_runs:13|step3_1_total_runs:6|step3_1_finished_runs:0|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:79.12% 9434b020-de42-43eb-bcc4-542b2be69015,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/ljcbdxpa|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/cd3jmhod,https://wandb.ai/xzy11632/dance-dev/sweeps/iuk576pz,https://wandb.ai/xzy11632/dance-dev/sweeps/xgyejfld","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1009,7 +1009,7 @@ c5d88abe-f23a-45fa-a534-788985e93dad,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.9725000262260436 +",0.9725000262260436,all_total_runs:196|all_finished_runs:156|step2_total_runs:150|step2_finished_runs:120|step3_0_total_runs:20|step3_0_finished_runs:16|step3_1_total_runs:20|step3_1_finished_runs:20|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:79.59% a68b64d8-aee3-4947-81b7-36b8fe5a44d2,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/xkh6yuxk|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/spekwsdz,https://wandb.ai/xzy11632/dance-dev/sweeps/6dh4dpk0,https://wandb.ai/xzy11632/dance-dev/sweeps/i3do9zdc","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -1126,7 +1126,7 @@ a68b64d8-aee3-4947-81b7-36b8fe5a44d2,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.637499988079071 +",0.637499988079071,all_total_runs:182|all_finished_runs:99|step2_total_runs:150|step2_finished_runs:95|step3_0_total_runs:20|step3_0_finished_runs:4|step3_1_total_runs:6|step3_1_finished_runs:0|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:54.40% bdf69f8d-5a96-4d6f-a9f5-9ee0e33597b7,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/ker3hse1|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/u2lungmk,https://wandb.ai/xzy11632/dance-dev/sweeps/dj0siwoj,https://wandb.ai/xzy11632/dance-dev/sweeps/drz0g4vw","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1209,7 +1209,7 @@ bdf69f8d-5a96-4d6f-a9f5-9ee0e33597b7,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:196|all_finished_runs:140|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:16|step3_1_total_runs:20|step3_1_finished_runs:5|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:71.43% d4e69e01-3ba2-4d6b-a15d-e7048f78f22e,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/7a6dob4a|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/oi1v8899,https://wandb.ai/xzy11632/dance-dev/sweeps/2uaewfha,https://wandb.ai/xzy11632/dance-dev/sweeps/6dyddwas","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -1313,7 +1313,7 @@ d4e69e01-3ba2-4d6b-a15d-e7048f78f22e,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.25 +",0.25,all_total_runs:210|all_finished_runs:154|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:16|step3_1_total_runs:20|step3_1_finished_runs:8|step3_2_total_runs:20|step3_2_finished_runs:11|finished_rate:73.33% d567b692-c374-4628-a508-8008f6778f22,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/hg8lr90w|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/bytbzr48,https://wandb.ai/xzy11632/dance-dev/sweeps/f12fqnz0,https://wandb.ai/xzy11632/dance-dev/sweeps/e7224vbc","- type: filter.gene target: FilterGenesPercentile params: {} @@ -1381,7 +1381,7 @@ d567b692-c374-4628-a508-8008f6778f22,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",0.2924999892711639,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/4raopmgl|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/tj8oqma7,https://wandb.ai/xzy11632/dance-dev/sweeps/j7f8tlxr,https://wandb.ai/xzy11632/dance-dev/sweeps/vo4w0lty","- type: filter.gene +",0.29249998927116394,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/4raopmgl|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/tj8oqma7,https://wandb.ai/xzy11632/dance-dev/sweeps/j7f8tlxr,https://wandb.ai/xzy11632/dance-dev/sweeps/vo4w0lty","- type: filter.gene target: FilterGenesPlaceHolder - type: normalize target: NormalizeTotal @@ -1406,7 +1406,7 @@ d567b692-c374-4628-a508-8008f6778f22,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.265500009059906 +",0.265500009059906,all_total_runs:210|all_finished_runs:158|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:14|step3_1_total_runs:20|step3_1_finished_runs:19|step3_2_total_runs:20|step3_2_finished_runs:6|finished_rate:75.24% e6a11140-2545-46bc-929e-da243eed2cae,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/ugaq0qoa|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/ce8bglci,https://wandb.ai/xzy11632/dance-dev/sweeps/7rk5gmih,https://wandb.ai/xzy11632/dance-dev/sweeps/r3xtjpfd","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1523,7 +1523,7 @@ e6a11140-2545-46bc-929e-da243eed2cae,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.6265000104904175 +",0.6265000104904175,all_total_runs:196|all_finished_runs:120|step2_total_runs:150|step2_finished_runs:106|step3_0_total_runs:20|step3_0_finished_runs:7|step3_1_total_runs:20|step3_1_finished_runs:7|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:61.22% f15e263b-6544-46cb-a46e-e33ab7ce8347,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/lhd5hw1j|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/hkqqu13y,https://wandb.ai/xzy11632/dance-dev/sweeps/l8tuzebe,https://wandb.ai/xzy11632/dance-dev/sweeps/94g5yum1","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1621,7 +1621,7 @@ f15e263b-6544-46cb-a46e-e33ab7ce8347,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.324999988079071 +",0.324999988079071,all_total_runs:196|all_finished_runs:154|step2_total_runs:150|step2_finished_runs:119|step3_0_total_runs:20|step3_0_finished_runs:19|step3_1_total_runs:20|step3_1_finished_runs:16|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:78.57% f75f2ff4-2884-4c2d-b375-70de37a34507,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/5ueqmi7v|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/1qtlda25,https://wandb.ai/xzy11632/dance-dev/sweeps/ir5rr5hz,https://wandb.ai/xzy11632/dance-dev/sweeps/krbtx7e0","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1714,7 +1714,7 @@ f75f2ff4-2884-4c2d-b375-70de37a34507,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:182|all_finished_runs:129|step2_total_runs:150|step2_finished_runs:118|step3_0_total_runs:20|step3_0_finished_runs:11|step3_1_total_runs:6|step3_1_finished_runs:0|step3_2_total_runs:6|step3_2_finished_runs:0|finished_rate:70.88% f7995301-7551-4e1d-8396-ffe3c9497ace,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/jv6l7zfb|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/1sctem2k,https://wandb.ai/xzy11632/dance-dev/sweeps/p40vryym,https://wandb.ai/xzy11632/dance-dev/sweeps/g0mqq7jx","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -1807,7 +1807,7 @@ f7995301-7551-4e1d-8396-ffe3c9497ace,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type -",1.0,,, +",1.0,,,,all_total_runs:210|all_finished_runs:149|step2_total_runs:150|step2_finished_runs:120|step3_0_total_runs:20|step3_0_finished_runs:12|step3_1_total_runs:20|step3_1_finished_runs:15|step3_2_total_runs:20|step3_2_finished_runs:2|finished_rate:70.95% fa27492b-82ff-4ab7-ac61-0e2b184eee67,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/53f85d2t|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/mx5wisvh,https://wandb.ai/xzy11632/dance-dev/sweeps/3hgvwcnm,https://wandb.ai/xzy11632/dance-dev/sweeps/d3hegirq","- type: filter.gene target: FilterGenesPlaceHolder params: {} @@ -1921,7 +1921,7 @@ fa27492b-82ff-4ab7-ac61-0e2b184eee67,"step2:https://wandb.ai/xzy11632/dance-dev/ config_dict: feature_channel: feature.cell label_channel: cell_type -",0.6654999852180481 +",0.6654999852180481,all_total_runs:210|all_finished_runs:188|step2_total_runs:150|step2_finished_runs:128|step3_0_total_runs:20|step3_0_finished_runs:20|step3_1_total_runs:20|step3_1_finished_runs:20|step3_2_total_runs:20|step3_2_finished_runs:20|finished_rate:89.52% 65badd7a-9262-4fd1-9ce2-eb5dc0ca8039,"step2:https://wandb.ai/xzy11632/dance-dev/sweeps/iyzgg8qc|step3:https://wandb.ai/xzy11632/dance-dev/sweeps/2g6gclgm,https://wandb.ai/xzy11632/dance-dev/sweeps/v8ut5hbp,https://wandb.ai/xzy11632/dance-dev/sweeps/j0a5a1y8","- type: filter.gene target: FilterGenesScanpyOrder params: @@ -2008,7 +2008,7 @@ fa27492b-82ff-4ab7-ac61-0e2b184eee67,"step2:https://wandb.ai/xzy11632/dance-dev/ params: config_dict: label_channel: cell_type 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