Normalization & scoring

Colony .dat files in, normalized sizes and scores out. Everything is checked before anything runs.

Plates
or drop the .dat files here
One colony .dat per plate, named user_ctrl|dm_QUERY_PLATEID_... — the name is what links a control plate to the experiment it scores.
Read from the file names

A control plate is matched to its experiment by query and array plate, so a typo here is why a run comes back with nothing scored. Switch on Correct names and fix it rather than renaming files and uploading again.

File nameScreen typeQuery ORFArray plate

Settings
Pick a stored layout, or upload your own array below.
per strain
plate1 ... plateN, or drop them here
One file per plate, named plate1 ... plateN. Used for this run only, and not added to the list above.

The plates the array has and the screen does not are simply absent from the result. Submit them with the rest to score the whole array.

Colonies near the query on its own chromosome reflect linkage, not interaction, so they are left unscored.
KB

Advanced diagnostics, and the old pipeline
Keep colonies the big-replicates filter would drop.

Everything runs by default. Skipping a step is for diagnosing a run that went wrong, not for normal analysis.

Reproduces the original R pipeline, bugs included, for comparing against a run from the old site.
Bookkeeping name the run, get an email when it finishes
Optional. Told when the run finishes.
Everything is checked before the run starts; a problem comes straight back to this form.