Hi I am running into a couple of issues with running the program (granted I don't have a lot of experience with coding, etc...). When trying running the start code:
docker run -it --rm -v "$PWD":/data compbiocore/viva-cli viva --save_remotely -f file.vcf -s pdf -o output
it runs everything until it tries to load the vcf and gives this error:
Finished loading packages!
Reading file.vcf ...
ERROR: LoadError: SystemError: opening file "file.vcf": No such file or directory
Stacktrace:
[1] #systemerror#43(::Nothing, ::Function, ::String, ::Bool) at ./error.jl:134
[2] systemerror at ./error.jl:134 [inlined]
[3] #open#309(::Bool, ::Nothing, ::Nothing, ::Nothing, ::Nothing, ::Function, ::String) at ./iostream.jl:289
[4] #open at ./none:0 [inlined]
[5] open(::String, ::String) at ./iostream.jl:345
[6] top-level scope at none:0
[7] include at ./boot.jl:326 [inlined]
[8] include_relative(::Module, ::String) at ./loading.jl:1038
[9] include(::Module, ::String) at ./sysimg.jl:29
[10] exec_options(::Base.JLOptions) at ./client.jl:267
[11] _start() at ./client.jl:436
in expression starting at /usr/local/bin/viva:130
Any help would be much appreciated considering I don't have any experience but need to use the program for my project
Hi I am running into a couple of issues with running the program (granted I don't have a lot of experience with coding, etc...). When trying running the start code:
docker run -it --rm -v "$PWD":/data compbiocore/viva-cli viva --save_remotely -f file.vcf -s pdf -o output
it runs everything until it tries to load the vcf and gives this error:
Finished loading packages!
Reading file.vcf ...
ERROR: LoadError: SystemError: opening file "file.vcf": No such file or directory Stacktrace: [1] #systemerror#43(::Nothing, ::Function, ::String, ::Bool) at ./error.jl:134 [2] systemerror at ./error.jl:134 [inlined] [3] #open#309(::Bool, ::Nothing, ::Nothing, ::Nothing, ::Nothing, ::Function, ::String) at ./iostream.jl:289 [4] #open at ./none:0 [inlined] [5] open(::String, ::String) at ./iostream.jl:345 [6] top-level scope at none:0 [7] include at ./boot.jl:326 [inlined] [8] include_relative(::Module, ::String) at ./loading.jl:1038 [9] include(::Module, ::String) at ./sysimg.jl:29 [10] exec_options(::Base.JLOptions) at ./client.jl:267 [11] _start() at ./client.jl:436 in expression starting at /usr/local/bin/viva:130
Any help would be much appreciated considering I don't have any experience but need to use the program for my project