Process completed with exit code 1.

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:92-100 ```jldoctest julia> readrecord("example.pdb"); # detects PDB format from extension julia> readrecord("example.cif"); # detects mmCIF format from extension julia> readrecord("example.abc", PDBFormat); # force PDB format julia> readrecord("example.xyz", MMCIFFormat); # force mmCIF format ``` Subexpression: readrecord("example.pdb"); # detects PDB format from extension Evaluated output: ERROR: SystemError: opening file "example.pdb": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:293 [4] open @ ./iostream.jl:275 [inlined] [5] open(f::BioStructures.var"#61#62"{String, @kwargs{}, DataType}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:394 [6] open @ ./io.jl:393 [inlined] [7] #read#60 @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:112 [inlined] [8] read @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:108 [inlined] [9] readrecord(path::String, format::Type{BioStructures.PDBFormat}) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:102 [10] readrecord(path::String) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:103 [11] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: SystemError: opening file "example.pdb": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:293 [4] open @ ./iostream.jl:275 [inlined] [5] open(f::BioStructures.var"#61#62"{String, @kwargs{}, DataType}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:394 [6] open @ ./io.jl:393 [inlined] [7] #read#60 @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:112 [inlined] [8] read @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:108 [inlined] [9] readrecord(path::String, format::Type{BioStructures.PDBFormat}) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:102 [10] readrecord(path::String) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:103 [11] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:92-100 ```jldoctest julia> readrecord("example.pdb"); # detects PDB format from extension julia> readrecord("example.cif"); # detects mmCIF format from extension julia> readrecord("example.abc", PDBFormat); # force PDB format julia> readrecord("example.xyz", MMCIFFormat); # force mmCIF format ``` Subexpression: readrecord("example.cif"); # detects mmCIF format from extension Evaluated output: ERROR: SystemError: opening file "example.cif": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:293 [4] open @ ./iostream.jl:275 [inlined] [5] open(f::BioStructures.var"#61#62"{String, @kwargs{}, DataType}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:394 [6] open @ ./io.jl:393 [inlined] [7] #read#60 @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:112 [inlined] [8] read @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:108 [inlined] [9] readrecord(path::String, format::Type{BioStructures.MMCIFFormat}) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:102 [10] readrecord(path::String) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:103 [11] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: SystemError: opening file "example.cif": No such file or directory Stacktrace: [1] systemerror(p::String, errno::Int32; extrainfo::Nothing) @ Base ./error.jl:176 [2] systemerror @ ./error.jl:175 [inlined] [3] open(fname::String; lock::Bool, read::Nothing, write::Nothing, create::Nothing, truncate::Nothing, append::Nothing) @ Base ./iostream.jl:293 [4] open @ ./iostream.jl:275 [inlined] [5] open(f::BioStructures.var"#61#62"{String, @kwargs{}, DataType}, args::String; kwargs::@kwargs{}) @ Base ./io.jl:394 [6] open @ ./io.jl:393 [inlined] [7] #read#60 @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:112 [inlined] [8] read @ ~/.julia/packages/BioStructures/qkpv0/src/pdb.jl:108 [inlined] [9] readrecord(path::String, format::Type{BioStructures.MMCIFFormat}) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:102 [10] readrecord(path::String) @ ProteinChains ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:103 [11] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:92-100 ```jldoctest julia> readrecord("example.pdb"); # detects PDB format from extension julia> readrecord("example.cif"); # detects mmCIF format from extension julia> readrecord("example.abc", PDBFormat); # force PDB format julia> readrecord("example.xyz", MMCIFFormat); # force mmCIF format ``` Subexpression: readrecord("example.abc", PDBFormat); # force PDB format Evaluated output: ERROR: UndefVarError: `PDBFormat` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `PDBFormat` not defined Stacktrace: [1] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:92-100 ```jldoctest julia> readrecord("example.pdb"); # detects PDB format from extension julia> readrecord("example.cif"); # detects mmCIF format from extension julia> readrecord("example.abc", PDBFormat); # force PDB format julia> readrecord("example.xyz", MMCIFFormat); # force mmCIF format ``` Subexpression: readrecord("example.xyz", MMCIFFormat); # force mmCIF format Evaluated output: ERROR: UndefVarError: `MMCIFFormat` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `MMCIFFormat` not defined Stacktrace: [1] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:165-173 ```jldoctest julia> writechains("example.pdb", chains) # detects PDB format from extension julia> writechains("example.cif", chains) # detects mmCIF format from extension julia> writechains("example.abc", chains, PDBFormat) # force PDB format julia> writechains("example.xyz", chains, MMCIFFormat) # force mmCIF format ``` Subexpression: writechains("example.pdb", chains) # detects PDB format from extension Evaluated output: ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:165-173 ```jldoctest julia> writechains("example.pdb", chains) # detects PDB format from extension julia> writechains("example.cif", chains) # detects mmCIF format from extension julia> writechains("example.abc", chains, PDBFormat) # force PDB format julia> writechains("example.xyz", chains, MMCIFFormat) # force mmCIF format ``` Subexpression: writechains("example.cif", chains) # detects mmCIF format from extension Evaluated output: ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:165-173 ```jldoctest julia> writechains("example.pdb", chains) # detects PDB format from extension julia> writechains("example.cif", chains) # detects mmCIF format from extension julia> writechains("example.abc", chains, PDBFormat) # force PDB format julia> writechains("example.xyz", chains, MMCIFFormat) # force mmCIF format ``` Subexpression: writechains("example.abc", chains, PDBFormat) # force PDB format Evaluated output: ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1

doctest failure in ~/work/ProteinChains.jl/ProteinChains.jl/src/io.jl:165-173 ```jldoctest julia> writechains("example.pdb", chains) # detects PDB format from extension julia> writechains("example.cif", chains) # detects mmCIF format from extension julia> writechains("example.abc", chains, PDBFormat) # force PDB format julia> writechains("example.xyz", chains, MMCIFFormat) # force mmCIF format ``` Subexpression: writechains("example.xyz", chains, MMCIFFormat) # force mmCIF format Evaluated output: ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1 Expected output: diff = Warning: Diff output requires color. ERROR: UndefVarError: `writechains` not defined Stacktrace: [1] top-level scope @ none:1

Process completed with exit code 1.

Codecov: Failed to properly create commit: The process '/home/runner/work/_actions/codecov/codecov-action/v4/dist/codecov' failed with exit code 1

Codecov: Failed to properly create commit: The process '/home/runner/work/_actions/codecov/codecov-action/v4/dist/codecov' failed with exit code 1