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Created April 20, 2020 07:44
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Error massage while using Fire.jl
$ 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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