feat!: bam header to_hashmap method now returns a result in order to deal with header parsing issues #875
johanneskoesterrust.yml
on: pull_request
Formatting
9s
Linting
1m 56s
Annotations
11 errors and 69 warnings
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Testing-Features (no-default-features):
src/bam/mod.rs#L3000
type annotations needed
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Testing-Features (no-default-features)
The process '/home/runner/.cargo/bin/cargo' failed with exit code 101
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Testing-Features (all-features)
The job was canceled because "no-default-features" failed.
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Testing-Features (all-features)
The operation was canceled.
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Testing-MacOS (intel-ventura)
The process '/Users/runner/.cargo/bin/cargo' failed with exit code 101
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Testing-MacOS (silicon-sonoma)
The job was canceled because "intel-ventura" failed.
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Testing-MacOS (silicon-sonoma)
The operation was canceled.
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Testing-MacOS (intel-monterey)
The job was canceled because "intel-ventura" failed.
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Testing-MacOS (intel-monterey)
The operation was canceled.
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Linting
Unable to create clippy annotations! Reason: HttpError: Resource not accessible by integration
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Testing
The process '/home/runner/.cargo/bin/cargo' failed with exit code 1
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Formatting
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Formatting
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Formatting
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Formatting
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Formatting
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Formatting
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions-rs/[email protected], Swatinem/[email protected], actions-rs/cargo@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Testing-Features (no-default-features)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v2, actions-rs/[email protected], Swatinem/[email protected], actions-rs/cargo@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Testing-Features (no-default-features):
src/bam/mod.rs#L1395
unnecessary parentheses around function argument
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Testing-Features (no-default-features):
src/bcf/record.rs#L134
field `buffer` is never read
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Testing-Features (no-default-features):
src/tbx/mod.rs#L94
field `hts_format` is never read
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Testing-Features (no-default-features):
src/bam/record.rs#L140
the type `hts_sys::bam1_t` does not permit being left uninitialized
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Testing-Features (no-default-features)
`rust-htslib` (lib) generated 4 warnings (run `cargo fix --lib -p rust-htslib` to apply 1 suggestion)
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Testing-Features (no-default-features):
src/bam/mod.rs#L3031
variable does not need to be mutable
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Testing-Features (no-default-features)
`rust-htslib` (lib test) generated 2 warnings (1 duplicate)
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Testing-Features (no-default-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (no-default-features)
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Testing-Features (no-default-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (all-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (all-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (all-features)
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Testing-Features (all-features)
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Testing-Features (all-features)
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Testing-Features (all-features)
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-Features (all-features)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-ventura)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions-rs/[email protected], actions-rs/[email protected]. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Testing-MacOS (intel-ventura)
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v2, actions-rs/[email protected], actions-rs/[email protected]. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Testing-MacOS (intel-ventura)
Formula curl-openssl was renamed to curl.
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Testing-MacOS (intel-ventura)
xz 5.6.3 is already installed and up-to-date.
To reinstall 5.6.3, run:
brew reinstall xz
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Testing-MacOS (intel-ventura)
curl 8.10.1 is already installed and up-to-date.
To reinstall 8.10.1, run:
brew reinstall curl
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Testing-MacOS (intel-ventura)
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Testing-MacOS (intel-ventura)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-ventura)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-ventura)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (silicon-sonoma)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (silicon-sonoma)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (silicon-sonoma)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (silicon-sonoma)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (silicon-sonoma)
Formula curl-openssl was renamed to curl.
|
|
Testing-MacOS (silicon-sonoma)
xz 5.6.3 is already installed and up-to-date.
To reinstall 5.6.3, run:
brew reinstall xz
|
|
Testing-MacOS (silicon-sonoma)
curl 8.10.1 is already installed and up-to-date.
To reinstall 8.10.1, run:
brew reinstall curl
|
|
Testing-MacOS (intel-monterey)
Formula curl-openssl was renamed to curl.
|
|
Testing-MacOS (intel-monterey)
xz 5.6.3 is already installed and up-to-date.
To reinstall 5.6.3, run:
brew reinstall xz
|
|
Testing-MacOS (intel-monterey)
curl 8.10.1 is already installed and up-to-date.
To reinstall 8.10.1, run:
brew reinstall curl
|
|
Testing-MacOS (intel-monterey)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-monterey)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-monterey)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing-MacOS (intel-monterey)
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Linting
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions-rs/[email protected], actions-rs/clippy-check@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Linting
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v2, actions-rs/[email protected], actions-rs/clippy-check@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Linting
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Linting
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Linting
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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It seems that this Action is executed from the forked repository.
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Linting
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Testing
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions-rs/[email protected], Swatinem/[email protected], actions-rs/[email protected]. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Testing
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/checkout@v2, actions-rs/[email protected], Swatinem/[email protected], actions-rs/[email protected]. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
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Testing
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `save-state` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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