Created
April 20, 2020 07:44
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Error massage while using Fire.jl
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$ julia cli/run.jl relcov examples/data/RamDA_72h_A09.uniq.q40.bam examples/data/gencode.vM15.primary_assembly.annotation.protein_coding.head.bed zzz_experiments/_fire_test_relcov | |
Start calculating relative gene body coverage... | |
- bam: examples/data/RamDA_72h_A09.uniq.q40.bam | |
- bed12: examples/data/gencode.vM15.primary_assembly.annotation.protein_coding.head.bed | |
- output: zzz_experiments/_fire_test_relcov.geneBodyCoverage.txt | |
zzz_experiments/_fire_test_relcov.geneBodyCoverage.pdf | |
- transcript_length_cut: 100 | |
- max_depth: 0 | |
- N_bin: 100 | |
transcripts: 5000 | |
signal (11): Segmentation fault: 11 | |
in expression starting at none:0 | |
PyErr_FormatV at /Users/ozakiharuka/.julia/conda/3/lib/libpython3.7m.dylib (unknown line) | |
PyErr_Format at /Users/ozakiharuka/.julia/conda/3/lib/libpython3.7m.dylib (unknown line) | |
PyObject_Call at /Users/ozakiharuka/.julia/conda/3/lib/libpython3.7m.dylib (unknown line) | |
macro expansion at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/exception.jl:93 [inlined] | |
#110 at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:43 [inlined] | |
disable_sigint at ./c.jl:446 [inlined] | |
__pycall! at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:42 [inlined] | |
_pycall! at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:29 | |
_pycall! at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:11 [inlined] | |
#pycall#116 at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:83 [inlined] | |
pycall at /Users/ozakiharuka/.julia/packages/PyCall/zqDXB/src/pyfncall.jl:83 [inlined] | |
#ioff#68 at /Users/ozakiharuka/.julia/packages/PyPlot/XHEG0/src/PyPlot.jl:177 | |
ioff at /Users/ozakiharuka/.julia/packages/PyPlot/XHEG0/src/PyPlot.jl:174 | |
unknown function (ip: 0x11885927c) | |
jl_apply at /Users/julia/buildbot/worker/package_macos64/build/src/./julia.h:1631 [inlined] | |
do_call at /Users/julia/buildbot/worker/package_macos64/build/src/interpreter.c:328 | |
eval_body at /Users/julia/buildbot/worker/package_macos64/build/src/interpreter.c:0 | |
jl_interpret_toplevel_thunk_callback at /Users/julia/buildbot/worker/package_macos64/build/src/interpreter.c:888 | |
unknown function (ip: 0xfffffffffffffffe) | |
unknown function (ip: 0x11073238f) | |
unknown function (ip: 0x2) | |
jl_interpret_toplevel_thunk at /Users/julia/buildbot/worker/package_macos64/build/src/interpreter.c:897 | |
jl_toplevel_eval_flex at /Users/julia/buildbot/worker/package_macos64/build/src/toplevel.c:814 | |
jl_toplevel_eval at /Users/julia/buildbot/worker/package_macos64/build/src/toplevel.c:823 [inlined] | |
jl_toplevel_eval_in at /Users/julia/buildbot/worker/package_macos64/build/src/toplevel.c:843 | |
eval at ./boot.jl:330 [inlined] | |
_initialize_backend at /Users/ozakiharuka/.julia/packages/Plots/ZRCUN/src/backends.jl:487 | |
backend at /Users/ozakiharuka/.julia/packages/Plots/ZRCUN/src/backends.jl:176 | |
#pyplot#225 at /Users/ozakiharuka/. | |
julia/packages/Plots/ZRCUN/src/backends.jl:33 [inlined] | |
pyplot at /Users/ozakiharuka/.julia/packages/Plots/ZRCUN/src/backends.jl:33 [inlined] | |
#plot_relative_coverage#21 at /Users/ozakiharuka/.julia/packages/ReadCoverage/LJgkx/src/plot.jl:27 | |
#plot_relative_coverage at ./none:0 [inlined] | |
#relative_genebodycoverage#1 at /Users/ozakiharuka/.julia/packages/ReadCoverage/LJgkx/src/relative_genebodycoverage.jl:77 | |
#relative_genebodycoverage at ./none:0 [inlined] | |
#relcov#3 at /Users/ozakiharuka/Dropbox/research/2019/10_abCov/AbCov/cli/run.jl:9 [inlined] | |
relcov at /Users/ozakiharuka/Dropbox/research/2019/10_abCov/AbCov/cli/run.jl:9 | |
jl_apply at /Users/julia/buildbot/worker/package_macos64/build/src/./julia.h:1631 [inlined] | |
jl_f__apply at /Users/julia/buildbot/worker/package_macos64/build/src/builtins.c:627 | |
parse_command_line at /Users/ozakiharuka/.julia/packages/Fire/Ge5mF/src/Fire.jl:168 | |
unknown function (ip: 0x118824bdc) | |
_atexit at ./initdefs.jl:309 | |
jfptr__atexit_12629.clone_1 at /Applications/Julia-1.3.app/Contents/Resources/julia/lib/julia/sys.dylib (unknown line) | |
jl_apply at /Users/julia/buildbot/worker/package_macos64/build/src/./julia.h:1631 [inlined] | |
jl_atexit_hook at /Users/julia/buildbot/worker/package_macos64/build/src/init.c:242 | |
main at /Applications/Julia-1.3.app/Contents/Resources/julia/bin/julia (unknown line) | |
Allocations: 75129888 (Pool: 75112681; Big: 17207); GC: 109 | |
Segmentation fault: 11 |
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