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broadinstitute / 2020-06-01-Evidence-of-state-switching-in-single-cell-drug-response-Broad

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Metadata and Platemap #1

Open hkhawar opened 4 years ago

hkhawar commented 4 years ago

DATA COLLECTION

Initially for this project DMSO single data is collected and five replicate plates of 2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad

s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/

Screen Shot 2020-09-14 at 11 38 44 AM

Location of DMSO single cell data on S3

s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/backend/2016_04_01_a549_48hr_batch1/SQ00015201/SQ00015201_dmso.csv s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/backend/2016_04_01_a549_48hr_batch1/SQ00015201/SQ00015142_dmso.csv s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/backend/2016_04_01_a549_48hr_batch1/SQ00015201/SQ00015143_dmso.csv s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/backend/2016_04_01_a549_48hr_batch1/SQ00015201/SQ00015144_dmso.csv s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/backend/2016_04_01_a549_48hr_batch1/SQ00015201/SQ00015145_dmso.csv

Platemap s3://imaging-platform/projects/2015_10_05_DrugRepurposing_AravindSubramanian_GolubLab_Broad/workspace/metadata/2016_04_01_a549_48hr_batch1/platemap/C-7161-01-LM6-017.txt

gwaybio commented 4 years ago

@hkhawar - @sMyn42 and I noticed that these file paths are pointing to the project folders in the S3 bucket, and not the efs storage. You should consider moving compute to efs (it'll be the same path, except replace s3://imaging/platform/projects with /home/ubuntu/efs/. EFS is faster than S3

Are you interacting with the files in an EC2 instance?