Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Migrate to Postgres + make scripts more consistent #53

Open
wants to merge 15 commits into
base: master
Choose a base branch
from
+480 −514
Open

Migrate to Postgres + make scripts more consistent #53

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
15 commits
Select commit Hold shift + click to select a range
cfdc08b
Change 0/1 bytes to actual digits
stijndcl Nov 30, 2023
497ea3d
Port to PSQL
stijndcl Nov 30, 2023
ca2e806
Fix typo
stijndcl Nov 30, 2023
88acdf5
Stash
stijndcl Jan 11, 2024
362327e
Add constraint-only schema
stijndcl Jan 13, 2024
1a87a7e
Truncate two fields before printing
stijndcl Jan 17, 2024
e0be1b4
Fix missing primary keys
stijndcl Mar 13, 2024
7c003e2
Update scripts to generate valid data
stijndcl Apr 19, 2024
bcaff22
Update load script
stijndcl Apr 19, 2024
7e932a0
Remove host temporarily
stijndcl Apr 19, 2024
0844d83
Fix truncation of uniprot entries
stijndcl Apr 19, 2024
d6369b0
Fix typo
stijndcl Apr 19, 2024
8c2306e
Fix index naming
stijndcl Apr 19, 2024
9379ab4
Fix order of params
stijndcl May 6, 2024
fc0ead3
Remove db host
stijndcl May 6, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
303 changes: 0 additions & 303 deletions schemas/structure.sql
View file
Open in desktop

This file was deleted.

33 changes: 33 additions & 0 deletions schemas/structure_constraints_only.sql
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,33 @@
ALTER TABLE unipept.taxons
ADD PRIMARY KEY (id);
ALTER TABLE unipept.uniprot_entries
ADD PRIMARY KEY (id);
ALTER TABLE unipept.ec_numbers
ADD PRIMARY KEY (id);
ALTER TABLE unipept.go_terms
ADD PRIMARY KEY (id);
ALTER TABLE unipept.interpro_entries
ADD PRIMARY KEY (id);
ALTER TABLE unipept.lineages
ADD PRIMARY KEY (taxon_id);
ALTER TABLE unipept.sequences
ADD PRIMARY KEY (id);
ALTER TABLE unipept.peptides
ADD PRIMARY KEY (id);
ALTER TABLE unipept.datasets
ADD PRIMARY KEY (id);
ALTER TABLE unipept.dataset_items
ADD PRIMARY KEY (id);
ALTER TABLE unipept.dataset_items
ADD CONSTRAINT fk_dataset_items_datasets
FOREIGN KEY (dataset_id)
REFERENCES unipept.datasets (id)
ON DELETE NO ACTION
ON UPDATE NO ACTION;
ALTER TABLE unipept.go_cross_references
ADD PRIMARY KEY (id);
ALTER TABLE unipept.ec_cross_references
ADD PRIMARY KEY (id);
ALTER TABLE unipept.interpro_cross_references
ADD PRIMARY KEY (id);

Loading
Loading