Dan King

[query] also prevent reading from cold storage

1

In Hail Query, we need to prevent reading from cold storage as well as writing to cold storage (which we already appear to be preventing).

[fs] largeDirectoryOperations

3

### What happened? Something is wrong with the largeDirectoryOperations test. It occasionally fails because a file still exists. I do not know why. Example: https://batch.hail.is/batches/8059890/jobs/202 ``` starting test is.hail.io.fs.GoogleStorageFSSuite.largeDirectoryOperations... Exception:...

### What happened? Public access buckets typically grant ```yaml - members: - allUsers role: roles/storage.objectViewer ``` which permits ``` resourcemanager.projects.get resourcemanager.projects.list storage.managedFolders.get storage.managedFolders.list storage.objects.get storage.objects.list ``` Notably excluding ``` storage.buckets.get...

[query] Hana / SEQR need support optimizing Hail Query code

38

### What happened? Hana Snow is the engineer for SEQR. Previously, SEQR used elastic search as its datastore. Unfortunately, elastic search was very expensive because, to get reasonable performance, SEQR...

[query] Feature Request: hl.vds.sample_qc_agg

3

### What happened? gnomAD team asks: > We would like to get these same sample stats broken down by different variant stratifications, so essentially, this is like what we do...

Hail datasets API and annotation database need to move to regional rather than multi-regional buckets

1

### What happened? gs://hail-datasets-us and gs://hail-datasets-eu currently reside in the us and eu multi-region. The cost for storage here has increased. Moreover, there is no longer free egress to the...

[query] implement `hl.dummy_code`

1

### What happened? Categorical data requires the user to preprocess their data. The subtle distinctions between dummy coding and one-hot encoding are not obvious to all users. We should provide...

### What happened? https://github.com/hail-is/hail/pull/12788 Complete review and address issues noted by Tim in comments. ### Version 0.2.127 ### Relevant log output _No response_

### What happened? ```python3 --- Logging error --- Traceback (most recent call last): File "/usr/lib/python3.9/logging/__init__.py", line 1083, in emit msg = self.format(record) File "/usr/lib/python3.9/logging/__init__.py", line 927, in format return fmt.format(record)...