Flip sticker (#91) #125
Annotations
2 errors, 13 warnings, and 5 notices
Documentation:
../../../.julia/packages/Documenter/PLD7m/src/Documenter.jl#L502
Git failed to fetch git@github.com:BioJulia/BioAlignments.jl.git
This can be caused by a DOCUMENTER_KEY variable that is not correctly set up.
Make sure that the environment variable is properly set up as a Base64-encoded string
of the SSH private key. You may need to re-generate the keys with DocumenterTools.
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Documentation:
../../../.julia/packages/Documenter/PLD7m/src/Documenter.jl#L603
Failed to push:
exception =
failed process: Process(`git fetch upstream`, ProcessExited(128)) [128]
Stacktrace:
[1] pipeline_error
@ ./process.jl:565 [inlined]
[2] run(::Cmd; wait::Bool)
@ Base ./process.jl:480
[3] run
@ ./process.jl:477 [inlined]
[4] (::Documenter.var"#git_commands#22"{String, String, SubString{String}, String, Vector{Any}, Bool, String, String})(sshconfig::String)
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:500
[5] (::Documenter.var"#21#27"{String})()
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:598
[6] cd(f::Documenter.var"#21#27"{String}, dir::String)
@ Base.Filesystem ./file.jl:112
[7] #20
@ ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:598 [inlined]
[8] withenv(f::Documenter.var"#20#26"{String, String}, keyvals::Pair{String, String})
@ Base ./env.jl:257
[9] (::Documenter.var"#19#25"{String, String, SubString{String}})(sshconfig::String, io::IOStream)
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:597
[10] mktemp(fn::Documenter.var"#19#25"{String, String, SubString{String}}, parent::String)
@ Base.Filesystem ./file.jl:738
[11] mktemp(fn::Function)
@ Base.Filesystem ./file.jl:736
[12] git_push(root::String, temp::String, repo::String; branch::String, dirname::String, target::String, sha::SubString{String}, devurl::String, versions::Vector{Any}, forcepush::Bool, deploy_config::Documenter.GitHubActions, subfolder::String)
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:582
[13] git_push
@ ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:477 [inlined]
[14] #13
@ ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:456 [inlined]
[15] mktempdir(fn::Documenter.var"#13#15"{SubString{String}, String, String, String, String, String, String, Vector{Any}, Bool, Documenter.GitHubActions, String}, parent::String; prefix::String)
@ Base.Filesystem ./file.jl:766
[16] mktempdir(fn::Function, parent::String)
@ Base.Filesystem ./file.jl:762
[17] mktempdir
@ ./file.jl:762 [inlined]
[18] (::Documenter.var"#12#14"{String, String, String, String, String, Nothing, String, Vector{Any}, Bool, Documenter.GitHubActions, String})()
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:455
[19] cd(f::Documenter.var"#12#14"{String, String, String, String, String, Nothing, String, Vector{Any}, Bool, Documenter.GitHubActions, String}, dir::String)
@ Base.Filesystem ./file.jl:112
[20] deploydocs(; root::String, target::String, dirname::String, repo::String, branch::String, deps::Nothing, make::Nothing, devbranch::String, devurl::String, versions::Vector{Any}, forcepush::Bool, deploy_config::Documenter.GitHubActions, push_preview::Bool)
@ Documenter ~/.julia/packages/Documenter/PLD7m/src/Documenter.jl:432
[21] top-level scope
@ ~/work/BioAlignments.jl/BioAlignments.jl/docs/make.jl:23
[22] include(fname::String)
@ Base.MainInclude ./client.jl:489
[23] top-level scope
@ none:8
[24] eval
@ ./boot.jl:385 [inlined]
[25] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:291
[26] _start()
@ Base ./client.jl:552
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[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
[julia-buildpkg] Caching of the julia depot was not detected
Consider using `julia-actions/cache` to speed up runs https://github.com/julia-actions/cache. To ignore, set input `ignore-no-cache: true`
|
Julia 1 - ubuntu-latest - x64 - push
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
Julia 1 - ubuntu-latest - x64 - push
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
Documentation:
../../../.julia/packages/Documenter/PLD7m/src/Expanders.jl#L334
no docs found for 'seq2ref(::PairwiseAlignment, ::Integer)' in `@docs` block in src/references.md:55-82
```@docs
PairwiseAlignment
Base.count(::PairwiseAlignment, ::Operation)
count_matches
count_mismatches
count_insertions
count_deletions
count_aligned
GlobalAlignment
SemiGlobalAlignment
OverlapAlignment
LocalAlignment
EditDistance
HammingDistance
LevenshteinDistance
AbstractScoreModel
AffineGapScoreModel
AbstractCostModel
CostModel
PairwiseAlignmentResult
pairalign
score
distance
alignment
hasalignment
seq2ref(::PairwiseAlignment, ::Integer)
ref2seq(::PairwiseAlignment, ::Integer)
```
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Documentation:
../../../.julia/packages/Documenter/PLD7m/src/Expanders.jl#L334
no docs found for 'ref2seq(::PairwiseAlignment, ::Integer)' in `@docs` block in src/references.md:55-82
```@docs
PairwiseAlignment
Base.count(::PairwiseAlignment, ::Operation)
count_matches
count_mismatches
count_insertions
count_deletions
count_aligned
GlobalAlignment
SemiGlobalAlignment
OverlapAlignment
LocalAlignment
EditDistance
HammingDistance
LevenshteinDistance
AbstractScoreModel
AffineGapScoreModel
AbstractCostModel
CostModel
PairwiseAlignmentResult
pairalign
score
distance
alignment
hasalignment
seq2ref(::PairwiseAlignment, ::Integer)
ref2seq(::PairwiseAlignment, ::Integer)
```
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Documentation:
../../../.julia/packages/Documenter/PLD7m/src/DocChecks.jl#L63
8 docstrings potentially missing:
BioAlignments.seq2aln :: Tuple{Alignment, Integer}
BioAlignments.ismetaop :: Tuple{Operation}
BioAlignments.aln2ref :: Tuple{Alignment, Integer}
BioAlignments.sequence :: Tuple{PairwiseAlignment}
BioAlignments.sequence :: Tuple{AlignedSequence}
BioAlignments.sequence :: Tuple{PairwiseAlignmentResult}
BioAlignments.aln2seq :: Tuple{Alignment, Integer}
BioAlignments.ref2aln :: Tuple{Alignment, Integer}
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Documentation
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
Documentation
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v2. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
Julia nightly - ubuntu-latest - x64 - push
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
Julia nightly - ubuntu-latest - x64 - push
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
Julia 1.6 - ubuntu-latest - x64 - push
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
Julia 1.6 - ubuntu-latest - x64 - push
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|
Julia 1 - windows-latest - x64 - push
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
|
Julia 1 - windows-latest - x64 - push
The following actions uses Node.js version which is deprecated and will be forced to run on node20: actions/checkout@v2, julia-actions/setup-julia@v1, actions/cache@v1, codecov/codecov-action@v1. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
|