unipept unipept-database issues

unipept / unipept-database

Makes database tables and indices for Unipept

MIT License

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Bump clap from 4.4.6 to 4.5.18 in /scripts/helper_scripts/unipept-database-rs

#67 dependabot[bot] opened 3 weeks ago
0
Bump regex from 1.10.2 to 1.11.0 in /scripts/helper_scripts/unipept-database-rs

#66 dependabot[bot] opened 3 weeks ago
0
Bump anyhow from 1.0.75 to 1.0.89 in /scripts/helper_scripts/unipept-database-rs

#65 dependabot[bot] opened 3 weeks ago
0
Bump clap from 4.4.6 to 4.5.16 in /scripts/helper_scripts/unipept-database-rs

#64 dependabot[bot] closed 3 weeks ago
1
Bump regex from 1.10.2 to 1.10.6 in /scripts/helper_scripts/unipept-database-rs

#63 dependabot[bot] closed 3 weeks ago
1
Automatically generate ".version" with current UniProt-version

#62 pverscha closed 2 months ago
0
Suffix array

#61 tibvdm opened 2 months ago
0
Bump anyhow from 1.0.75 to 1.0.86 in /scripts/helper_scripts/unipept-database-rs

#60 dependabot[bot] closed 3 weeks ago
1
Bump regex from 1.10.2 to 1.10.5 in /scripts/helper_scripts/unipept-database-rs

#59 dependabot[bot] closed 1 month ago
1
Bump clap from 4.4.6 to 4.5.13 in /scripts/helper_scripts/unipept-database-rs

#58 dependabot[bot] closed 1 month ago
1
Bump chrono from 0.4.31 to 0.4.38 in /scripts/helper_scripts/unipept-database-rs

#57 dependabot[bot] opened 2 months ago
0
Bump strum from 0.25.0 to 0.26.3 in /scripts/helper_scripts/unipept-database-rs

#56 dependabot[bot] opened 2 months ago
0
Optimize the current relational database for future compatibility with the suffix array

#55 bmesuere closed 4 months ago
0
Create new target in build-database.sh for input of suffix array construction

#54 bmesuere closed 4 months ago
0
Migrate to Postgres + make scripts more consistent

#53 stijndcl opened 5 months ago
0
Add Dependabot

#52 stijndcl closed 2 months ago
0
Add sort_peptides back temporarily

#51 stijndcl closed 6 months ago
1
Fix FA format string

#50 stijndcl closed 7 months ago
0
Output of functional-analysis binary is not the same as before

#49 pverscha closed 7 months ago
0
Improve the check for the type of parser that should be used

#48 pverscha closed 7 months ago
0
Checking for file extension is not always sufficient to determine parser type

#47 pverscha closed 7 months ago
1
Fix bugs related to LZ4 decompression in non-database steps

#46 stijndcl closed 7 months ago
0
Automatically switch between XML and DAT parser for UniProtKB

#45 pverscha closed 7 months ago
0
Update static database action according to migration to Rust and LZ4

#44 pverscha closed 7 months ago
0
Speed up database construction pipeline

#43 pverscha closed 7 months ago
0
Fix requested changes from Pieter for Rust-only version

#42 stijndcl closed 7 months ago
0
Download NCBI Taxdmp file in CI

#41 stijndcl closed 7 months ago
2
Remove all Java and JS tools, use Lz4

#40 stijndcl closed 7 months ago
5
Rust DAT parser

#39 stijndcl closed 8 months ago
0
Re-write WriteToChunk and TaxaByChunk in Rust

#38 stijndcl closed 8 months ago
0
Update workflow for static database creation

#37 pverscha closed 10 months ago
0
Update the taxon computation jar

#36 pverscha closed 10 months ago
0
Fix sequences not getting printed correctly

#35 stijndcl closed 11 months ago
0
Improvements to the database construction pipeline

#34 pverscha opened 11 months ago
3
Rust Taxon Dump Parser

#33 stijndcl closed 9 months ago
0
Rust LCA

#32 stijndcl closed 9 months ago
10
Add first Rust tools

#31 stijndcl closed 11 months ago
0
Provide fix for empty functional annotations in database

#30 pverscha closed 1 year ago
0
Add bacterium taxon to filter

#29 pverscha closed 1 year ago
0
Directly keep track of taxa associated with peptides

#28 pverscha closed 2 months ago
0
Add KEGG identifiers to Unipept database

#27 pverscha closed 2 months ago
0
Optimise database schema

#26 pverscha closed 1 year ago
0
Remove all references to proteomes from the Unipept database

#25 pverscha closed 1 year ago
0
Check out warnings

#24 pverscha opened 2 years ago
0
Bump junit from 4.11 to 4.13.1 in /scripts/helper_scripts/parser

#23 dependabot[bot] opened 2 years ago
0
Bump junit from 4.11 to 4.13.1

#22 dependabot[bot] opened 3 years ago
1
Improve run time of data construction

#21 pverscha closed 3 years ago
0
cleanup database upgrade scripts

#20 pverscha closed 3 years ago
2
Replace makefile and configure with single run script

#19 ninewise closed 3 years ago
4
Do not expect exact URLs

#18 ninewise closed 4 years ago
0