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refactor(extract): trim read names and read ids #54

refactor(extract): trim read names and read ids

refactor(extract): trim read names and read ids #54

Triggered via push February 13, 2024 03:54
Status Failure
Total duration 18m 7s
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test.yml

on: push
Matrix: Testing
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6 errors and 108 warnings
MSRV
failed to select a version for `env_logger`.
MSRV
The process '/home/runner/.cargo/bin/cargo' failed with exit code 101
Testing (windows)
test failed, to rerun pass `--test test_fa2fq`
Testing (windows)
test failed, to rerun pass `--test test_fq2fa`
Testing (windows)
2 targets failed:
Testing (windows)
The process 'C:\Users\runneradmin\.cargo\bin\cargo.exe' failed with exit code 101
Formatting
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Formatting
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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/
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/
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/
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/
MSRV
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/cargo@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
MSRV
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
MSRV
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/
MSRV
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/
MSRV
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/
MSRV
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/
function `graph_edit_distance` is never used: src/graph/ged.rs#L72
warning: function `graph_edit_distance` is never used --> src/graph/ged.rs:72:4 | 72 | fn graph_edit_distance(graph1: &DiGraph<(), ()>, graph2: &DiGraph<(), ()>) -> usize { | ^^^^^^^^^^^^^^^^^^^
function `calculate_edit_distance` is never used: src/graph/ged.rs#L47
warning: function `calculate_edit_distance` is never used --> src/graph/ged.rs:47:4 | 47 | fn calculate_edit_distance( | ^^^^^^^^^^^^^^^^^^^^^^^
function `ged_recursive` is never used: src/graph/ged.rs#L16
warning: function `ged_recursive` is never used --> src/graph/ged.rs:16:4 | 16 | fn ged_recursive( | ^^^^^^^^^^^^^
constant `COST_ADD_DEL` is never used: src/graph/ged.rs#L14
warning: constant `COST_ADD_DEL` is never used --> src/graph/ged.rs:14:7 | 14 | const COST_ADD_DEL: usize = 1; | ^^^^^^^^^^^^
constant `COST_SUB` is never used: src/graph/ged.rs#L13
warning: constant `COST_SUB` is never used --> src/graph/ged.rs:13:7 | 13 | const COST_SUB: usize = 1; | ^^^^^^^^
constant `COST_DEL` is never used: src/graph/ged.rs#L12
warning: constant `COST_DEL` is never used --> src/graph/ged.rs:12:7 | 12 | const COST_DEL: usize = 1; | ^^^^^^^^
constant `COST_ADD` is never used: src/graph/ged.rs#L11
warning: constant `COST_ADD` is never used --> src/graph/ged.rs:11:7 | 11 | const COST_ADD: usize = 1; | ^^^^^^^^ | = note: `#[warn(dead_code)]` on by default
unreachable pattern: src/main.rs#L178
warning: unreachable pattern --> src/main.rs:178:9 | 178 | _ => info!("Subcommand not implemented yet!"), | ^ | = note: `#[warn(unreachable_patterns)]` on by default
unused variable: `graph1`: src/graph/ged.rs#L48
warning: unused variable: `graph1` --> src/graph/ged.rs:48:5 | 48 | graph1: &DiGraph<(), ()>, | ^^^^^^ help: if this is intentional, prefix it with an underscore: `_graph1`
unused variable: `mapped_nodes1`: src/graph/ged.rs#L54
warning: unused variable: `mapped_nodes1` --> src/graph/ged.rs:54:9 | 54 | let mapped_nodes1: HashSet<_> = mapping.iter().filter_map(|(a, _)| *a).collect(); | ^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_mapped_nodes1` | = note: `#[warn(unused_variables)]` on by default
Linting
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/clippy-check@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Linting
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
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/
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/
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/
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/
Testing (stable)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/cargo@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Testing (stable)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable)
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/
Testing (stable): src/graph/ged.rs#L54
unused variable: `mapped_nodes1`
Testing (stable): src/graph/ged.rs#L48
unused variable: `graph1`
Testing (stable): src/main.rs#L178
unreachable pattern
Testing (stable): src/graph/ged.rs#L11
constant `COST_ADD` is never used
Testing (stable): src/graph/ged.rs#L12
constant `COST_DEL` is never used
Testing (stable): src/graph/ged.rs#L13
constant `COST_SUB` is never used
Testing (stable): src/graph/ged.rs#L14
constant `COST_ADD_DEL` is never used
Testing (stable): src/graph/ged.rs#L16
function `ged_recursive` is never used
Testing (stable): src/graph/ged.rs#L47
function `calculate_edit_distance` is never used
Testing (stable): src/graph/ged.rs#L72
function `graph_edit_distance` is never used
Testing (beta)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/cargo@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Testing (beta)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
Testing (beta): src/graph/ged.rs#L54
unused variable: `mapped_nodes1`
Testing (beta): src/graph/ged.rs#L48
unused variable: `graph1`
Testing (beta): src/main.rs#L178
unreachable pattern
Testing (beta): src/graph/ged.rs#L11
constant `COST_ADD` is never used
Testing (beta): src/graph/ged.rs#L12
constant `COST_DEL` is never used
Testing (beta): src/graph/ged.rs#L13
constant `COST_SUB` is never used
Testing (beta): src/graph/ged.rs#L14
constant `COST_ADD_DEL` is never used
Testing (beta): src/graph/ged.rs#L16
function `ged_recursive` is never used
Testing (beta): src/graph/ged.rs#L47
function `calculate_edit_distance` is never used
Testing (beta): src/graph/ged.rs#L72
function `graph_edit_distance` is never used
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (beta)
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/
Testing (windows)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/cargo@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Testing (windows)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
Testing (windows)
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/
Testing (windows)
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/
Testing (windows)
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/
Testing (windows)
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/
Testing (windows): src/graph/ged.rs#L54
unused variable: `mapped_nodes1`
Testing (windows): src/graph/ged.rs#L48
unused variable: `graph1`
Testing (windows): src/main.rs#L178
unreachable pattern
Testing (windows): src/graph/ged.rs#L11
constant `COST_ADD` is never used
Testing (windows): src/graph/ged.rs#L12
constant `COST_DEL` is never used
Testing (windows): src/graph/ged.rs#L13
constant `COST_SUB` is never used
Testing (windows): src/graph/ged.rs#L14
constant `COST_ADD_DEL` is never used
Testing (windows): src/graph/ged.rs#L16
function `ged_recursive` is never used
Testing (windows): src/graph/ged.rs#L47
function `calculate_edit_distance` is never used
Testing (windows): src/graph/ged.rs#L72
function `graph_edit_distance` is never used
Testing (windows)
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/
Testing (windows)
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/
Testing (windows)
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/
Testing (windows)
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/
Testing (macos)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions-rs/toolchain@v1, actions-rs/cargo@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
Testing (macos)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions-rs/toolchain@v1, 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/
Testing (macos): src/graph/ged.rs#L54
unused variable: `mapped_nodes1`
Testing (macos): src/graph/ged.rs#L48
unused variable: `graph1`
Testing (macos): src/main.rs#L178
unreachable pattern
Testing (macos): src/graph/ged.rs#L11
constant `COST_ADD` is never used
Testing (macos): src/graph/ged.rs#L12
constant `COST_DEL` is never used
Testing (macos): src/graph/ged.rs#L13
constant `COST_SUB` is never used
Testing (macos): src/graph/ged.rs#L14
constant `COST_ADD_DEL` is never used
Testing (macos): src/graph/ged.rs#L16
function `ged_recursive` is never used
Testing (macos): src/graph/ged.rs#L47
function `calculate_edit_distance` is never used
Testing (macos): src/graph/ged.rs#L72
function `graph_edit_distance` is never used
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/
Testing (macos)
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/