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dchaley
/
deepcell-imaging
Tools & guidance to scale DeepCell imaging on Google Cloud Batch
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Skip empty gs_uri_to_basename results
#369
dchaley-mayo
opened
2 days ago
0
Move model path & hash to config
#368
dchaley
opened
1 week ago
0
Build container from local files w/ helper script
#367
dchaley
closed
1 week ago
0
Use args, not host env, for Dockerfile
#366
dchaley
closed
2 weeks ago
0
Parameterize base image in dockerfile
#365
dchaley
closed
2 weeks ago
0
Separate DockerHub push from main build
#364
dchaley
closed
2 weeks ago
0
Add leading underscore to variable name
#363
dchaley
closed
2 weeks ago
0
Remove double --substitutions= flag
#362
dchaley
closed
2 weeks ago
0
Parameterize build
#361
dchaley
closed
2 weeks ago
0
Parameterize container build
#360
dchaley
opened
2 weeks ago
0
Improve deep_watershed memory usage
#359
dchaley
opened
1 month ago
0
Skip regionprops construction
#358
dchaley
closed
1 month ago
0
Optimize fill_holes, skip RegionProperties
#357
dchaley
closed
1 month ago
0
Debug hmaxima performance
#356
dchaley
closed
1 month ago
0
Use custom h_maxima
#355
dchaley
closed
1 month ago
0
Add comment to test container build
#354
dchaley
closed
1 month ago
0
Install python requirements outside full checkout
#353
dchaley
closed
1 month ago
0
Add basic cache from previously built container
#352
dchaley
closed
1 month ago
0
Add h_maxima with our grayscale reconstruction
#351
dchaley
closed
1 month ago
0
Integrate fast-hybrid into deepcell-imaging
#350
dchaley
closed
1 month ago
1
Use name NucleusMask not NuclearMask
#349
dchaley
closed
2 months ago
0
Use instance template with ops-agent
#348
dchaley
opened
2 months ago
0
Tag container as latest not batch
#347
dchaley
closed
2 months ago
0
Add git-lfs instructions
#346
dchaley
closed
2 months ago
0
Update benchmarking to include total time
#345
dchaley
opened
2 months ago
0
Update readme + summary diagram
#344
dchaley
closed
2 months ago
0
Update readme with Batch process
#343
dchaley
closed
2 months ago
0
Update container tag from "batch" to "latest"
#342
dchaley
closed
2 months ago
0
Rename pixels_m in BigQuery upload + schema
#341
dchaley
closed
2 months ago
0
Rename benchmarking pixels_m to pixels
#340
dchaley
closed
2 months ago
0
Use image name as benchmarking input id
#339
dchaley
closed
2 months ago
0
Set networking & service account in env config
#338
dchaley
closed
2 months ago
0
Add networking & service account to environment config
#337
dchaley
closed
2 months ago
0
Add benchmarking BQ schema file + update readme
#336
dchaley
closed
2 months ago
0
Fix required parameters for segment-only script
#335
dchaley
closed
2 months ago
1
Add instructions for benchmarking schema
#334
dchaley
closed
2 months ago
0
Add segmentation-only job
#333
dchaley
closed
2 months ago
0
Add BQ benchmarking table ID to environment config
#332
dchaley
closed
2 months ago
0
Add BQ benchmarking table to segment-and-measure.py script
#331
dchaley
closed
2 months ago
0
Benchmarking input file names are wrong
#330
dchaley
closed
2 months ago
0
Set QuPath disk to 500GB
#329
dchaley
closed
2 months ago
0
Replace boot disk with attached volume
#328
dchaley
closed
2 months ago
0
Create segmentation-only job launcher
#327
dchaley
closed
2 months ago
0
Add segmentation boot disk based on image size
#326
dchaley
closed
2 months ago
0
Detect name-resolution errors & be quiet!
#325
dchaley
closed
3 months ago
0
Output both whole-cell & nuclear masks
#324
dchaley
closed
3 months ago
0
Quiet error messages for getting GCP info on local
#323
dchaley
closed
3 months ago
0
Scale postprocessing
#322
dchaley
opened
3 months ago
1
Scale prediction
#321
dchaley
opened
3 months ago
0
Scale preprocessing
#320
dchaley
opened
3 months ago
0
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