bioconda-utils
bioconda-utils copied to clipboard
Published
20 hours ago •
bioconda
bioconda
bioconda-utils autobump throws cryptic info/error `nextclade has selector in line %i (replace failed)`
I'm trying to use bioconda-utils autobump to version bump nextclade but it doesn't work. I get the following message in logs (level INFO): nextclade has selector in line %i (replace failed) . What does this mean? What is line %i?
Why are the errors only logged at level info? What does the info right before about package missing mean?
15:42:42 BIOCONDA INFO Package nextclade=1.4.1=h527b516_0 missing!
15:42:43 BIOCONDA INFO nextclade has selector in line %i (replace failed)
Here's the full log:
bioconda-recipes on master via 🐍 v3.7.1 via 🅒 bioconda-nextclade took 3m50s
❯ bioconda-utils autobump recipes/ --packages nextclade --create-pr
15:41:52 BIOCONDA INFO Hosters loaded: ['FTPHoster', 'GithubRelease', 'GithubTag', 'GithubReleaseAttachment', 'GithubRepoStore', 'Bioconductor', 'CargoPort', 'SourceForge', 'PyPi', 'Bioarchive', 'CPAN', 'CRAN', 'BitBucketTag', 'BitBucketDownload', 'GitlabTag']
15:41:52 BIOCONDA WARNING Selected 1 packages
15:41:52 BIOCONDA INFO Building Recipe DAG
15:41:54 BIOCONDA INFO ucsc-axtchain has duplicate key
15:41:56 BIOCONDA INFO ucsc-axtswap has duplicate key
15:41:58 BIOCONDA INFO ucsc-axtsort has duplicate key
15:42:00 BIOCONDA INFO ucsc-autoxml has duplicate key
15:42:01 BIOCONDA INFO ucsc-bamtopsl has duplicate key
15:42:05 BIOCONDA INFO ucsc-avecols has duplicate key
15:42:05 BIOCONDA INFO ucsc-ameme has duplicate key
15:42:06 BIOCONDA INFO ucsc-axttomaf has duplicate key
15:42:10 BIOCONDA INFO ucsc-autodtd has duplicate key
15:42:12 BIOCONDA INFO openduck has duplicate key
15:42:13 BIOCONDA INFO ucsc-axttopsl has duplicate key
15:42:13 BIOCONDA INFO ucsc-bedcommonregions has duplicate key
15:42:14 BIOCONDA INFO ucsc-autosql has duplicate key
15:42:14 BIOCONDA INFO ucsc-bedclip has duplicate key
15:42:16 BIOCONDA INFO ucsc-addcols has duplicate key
Loading Recipes...: 100%|████████████████████████████████████████████████████████████████████████████████████████████████████████████████| 8220/8220 [00:25<00:00, 316.34it/s]
15:42:19 BIOCONDA INFO Building Recipe DAG: done (7061 nodes, 21053 edges)
15:42:19 BIOCONDA WARNING Graph contains 1 packages (blacklist excluded)
15:42:19 BIOCONDA WARNING Excluding 1306 blacklisted recipes
15:42:19 BIOCONDA WARNING Checking out master
15:42:19 BIOCONDA INFO Updating master to latest project master
15:42:20 BIOCONDA INFO Updating and pruning remotes
15:42:21 BIOCONDA INFO Loading package lists for ['conda-forge']
defaults/noarch: 4.49MB [00:00, 23.4MB/s] | 0/9 [00:00<?, ?files/s]
bioconda/linux: 23.4MB [00:00, 29.5MB/s] | 1/9 [00:00<00:03, 2.48files/s]
defaults/osx: 25.7MB [00:01, 17.9MB/s]███████▎ | 2/9 [00:01<00:05, 1.17files/s]
defaults/linux: 28.0MB [00:02, 13.1MB/s]███████████████████ | 3/9 [00:02<00:04, 1.30files/s]
conda-forge/noarch: 43.0MB [00:03, 14.5MB/s]████████████████████████████▋ | 4/9 [00:02<00:03, 1.31files/s]
bioconda/osx: 19.0MB [00:02, 7.81MB/s]████████████████████████████████████████████████▎ | 5/9 [00:04<00:04, 1.11s/files]
bioconda/noarch: 20.8MB [00:00, 76.3MB/s]███████████████████████████████████████████████████████████ | 6/9 [00:05<00:02, 1.01files/s]
conda-forge/osx: 129MB [00:06, 19.6MB/s]█████████████████████████████████████████████████████████████████████████▋ | 7/9 [00:06<00:01, 1.01files/s]
conda-forge/linux: 143MB [00:11, 12.8MB/s]█████████████████████████████████████████████████████████████████████████████████████▎ | 8/9 [00:11<00:02, 2.36s/files]
Downloading: 100%|███████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████| 9/9 [00:17<00:00, 1.97s/files]
15:42:40 BIOCONDA INFO Running pipeline with these steps:
15:42:40 BIOCONDA INFO 1. Exclude recipes disabled via config
15:42:40 BIOCONDA INFO 2. Exclude blacklisted recipes: build-fail-blacklist / 1306 recipes
15:42:40 BIOCONDA INFO 3. Exclude sub-recipes
15:42:40 BIOCONDA INFO 4. Exclude recipes depending on packages in need of update
15:42:40 BIOCONDA INFO 5. Load recipe from git (honoring active branches)
15:42:40 BIOCONDA INFO 6. Exclude recipes in conda-forge
15:42:40 BIOCONDA INFO 7. Bump recipes in need of rebuild after pinning changes
15:42:40 BIOCONDA INFO 8. Scan upstream for new releases and update recipe
15:42:40 BIOCONDA INFO 9. Update source checksums
15:42:40 BIOCONDA INFO 10. Write recipe to per-recipe git branch
15:42:40 BIOCONDA INFO 11. Create or Update PR on GitHub
15:42:42 BIOCONDA INFO Package nextclade=1.4.1=h527b516_0 missing!
15:42:43 BIOCONDA INFO Updating checksum for nextclade 1.4.2
15:42:43 BIOCONDA INFO nextclade has selector in line %i (replace failed)
100%|███████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████| 1/1 [00:02<00:00, 2.13s/it]
15:42:43 BIOCONDA WARNING Finished update
15:42:43 BIOCONDA INFO Unrecognized URL stats:
15:42:43 BIOCONDA INFO
15:42:43 BIOCONDA INFO Recipe status statistics:
15:42:43 BIOCONDA INFO HasSelector: 1
15:42:43 BIOCONDA INFO SUM: 1
15:42:43 BIOCONDA WARNING Switching back to master
