Running with gitlab-runner 13.8.0 (775dd39d)
  on scgn01-public-docker McK4j2hV
section_start:1614645658:prepare_executor
Preparing the "docker" executor
Using Docker executor with image svirlyu/sscocaller_nsb ...
Pulling docker image svirlyu/sscocaller_nsb ...
Using docker image sha256:fb43a14580439793731edbcb014218bcc0bd550e316d4c691637ad5ee2d492e7 for svirlyu/sscocaller_nsb with digest svirlyu/sscocaller_nsb@sha256:2840a2786d148d7ba86388c8290395984e7dac8ed833d558520e5eecf0bbe4fe ...
section_end:1614645756:prepare_executor
section_start:1614645756:prepare_script
Preparing environment
Running on runner-mck4j2hv-project-190-concurrent-0 via scgn01.svi.edu.au...
section_end:1614645759:prepare_script
section_start:1614645759:get_sources
Getting source from Git repository
Fetching changes with git depth set to 50...
Reinitialized existing Git repository in /builds/biocellgen-public/sscocaller/.git/
Checking out 7370a797 as master...

Skipping Git submodules setup
section_end:1614645769:get_sources
section_start:1614645769:step_script
Executing "step_script" stage of the job script
$ /usr/local/bin/nsb -s ./src/sscocaller.nim -n sscocaller.nimble -o . -- --d:release --threads:on
@["-s", "./src/sscocaller.nim", "-n", "sscocaller.nimble", "-o", ".", "--", "--d:release", "--threads:on"]
{"--outdir": ., "<nim_compiler_args>": ["--d:release", "--threads:on"], "--nim-src-file": ./src/sscocaller.nim, "--": true, "--deps": [], "--nimble-file": sscocaller.nimble}
  Verifying dependencies for sscocaller@0.1.0
      Info: Dependency on docopt@any version already satisfied
  Verifying dependencies for docopt@0.6.8
      Info: Dependency on regex@>= 0.7.4 already satisfied
  Verifying dependencies for regex@0.19.0
      Info: Dependency on unicodedb@>= 0.7.2 already satisfied
  Verifying dependencies for unicodedb@0.9.0
 Installing hts@>= 0.3.4
Downloading https://github.com/brentp/hts-nim using git
  Verifying dependencies for hts@0.3.14
 Installing hts@0.3.14
   Success: hts installed successfully.
 Installing https://github.com/ruqianl/distributions.git@any version
Downloading https://github.com/ruqianl/distributions.git using git
  Verifying dependencies for distributions@0.1.0
 Installing distributions@0.1.0
   Success: distributions installed successfully.
Hint: used config file '/nim/config/nim.cfg' [Conf]
Hint: used config file '/nim/config/config.nims' [Conf]
Hint: system [Processing]
Hint: widestrs [Processing]
Hint: io [Processing]
Hint: sscocaller [Processing]
Hint: os [Processing]
Hint: strutils [Processing]
Hint: parseutils [Processing]
Hint: math [Processing]
Hint: bitops [Processing]
Hint: macros [Processing]
Hint: algorithm [Processing]
Hint: unicode [Processing]
Hint: pathnorm [Processing]
Hint: osseps [Processing]
Hint: posix [Processing]
Hint: times [Processing]
Hint: options [Processing]
Hint: typetraits [Processing]
Hint: docopt [Processing]
Hint: regex [Processing]
Hint: tables [Processing]
Hint: hashes [Processing]
Hint: sequtils [Processing]
Hint: types [Processing]
Hint: sets [Processing]
Hint: properties [Processing]
Hint: properties_data [Processing]
Hint: common [Processing]
Hint: compiler [Processing]
Hint: parser [Processing]
Hint: exptype [Processing]
Hint: scanner [Processing]
Hint: exptransformation [Processing]
Hint: nfatype [Processing]
Hint: litopt [Processing]
Hint: nodematch [Processing]
Hint: types [Processing]
Hint: types_data [Processing]
Hint: nfa [Processing]
Hint: deques [Processing]
Hint: nfafindall [Processing]
Hint: nfamatch [Processing]
Hint: nfamacro [Processing]
Hint: util [Processing]
Hint: hts [Processing]
Hint: utils [Processing]
Hint: hts_concat [Processing]
Hint: bam [Processing]
Hint: strformat [Processing]
Hint: simpleoption [Processing]
Hint: vcf [Processing]
Hint: fai [Processing]
Hint: bgzf [Processing]
Hint: bgzi [Processing]
Hint: csi [Processing]
Hint: stats [Processing]
Hint: rmath [Processing]
Hint: streams [Processing]
/builds/biocellgen-public/sscocaller/src/sscocaller.nim(267, 9) Hint: 'spermIndex' is declared but not used [XDeclaredButNotUsed]
/builds/biocellgen-public/sscocaller/src/sscocaller.nim(191, 7) Hint: 'alexprSeq' is declared but not used [XDeclaredButNotUsed]
/builds/biocellgen-public/sscocaller/src/sscocaller.nim(77, 8) Hint: 'tostring' is declared but not used [XDeclaredButNotUsed]
/builds/biocellgen-public/sscocaller/src/sscocaller.nim(70, 8) Hint: 'reset_count' is declared but not used [XDeclaredButNotUsed]
/builds/biocellgen-public/sscocaller/src/sscocaller.nim(57, 7) Hint: 'mintotal' is declared but not used [XDeclaredButNotUsed]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(113, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(113, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(113, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(113, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(113, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(189, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(189, 1) Warning: observable stores to 'result' [ObservableStores]
/root/.nimble/pkgs/docopt-0.6.8/docopt.nim(189, 1) Warning: observable stores to 'result' [ObservableStores]
CC: stdlib_assertions.nim
CC: stdlib_dollars.nim
CC: stdlib_locks.nim
CC: stdlib_sharedlist.nim
CC: stdlib_formatfloat.nim
CC: stdlib_io.nim
CC: stdlib_system.nim
CC: stdlib_parseutils.nim
CC: stdlib_math.nim
CC: stdlib_algorithm.nim
CC: stdlib_unicode.nim
CC: stdlib_strutils.nim
CC: stdlib_times.nim
CC: stdlib_os.nim
CC: stdlib_hashes.nim
CC: stdlib_tables.nim
CC: stdlib_sequtils.nim
CC: stdlib_sets.nim
CC: ../../../../root/.nimble/pkgs/unicodedb-0.9.0/unicodedb/properties_data.nim
CC: ../../../../root/.nimble/pkgs/unicodedb-0.9.0/unicodedb/properties.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/common.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/types.nim
CC: ../../../../root/.nimble/pkgs/unicodedb-0.9.0/unicodedb/types_data.nim
CC: ../../../../root/.nimble/pkgs/unicodedb-0.9.0/unicodedb/types.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/nodematch.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/litopt.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/nfatype.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/nfamatch.nim
CC: ../../../../root/.nimble/pkgs/regex-0.19.0/regex/nfafindall.nim
CC: ../../../../root/.nimble/pkgs/docopt-0.6.8/docopt/util.nim
CC: ../../../../root/.nimble/pkgs/docopt-0.6.8/docopt.nim
CC: ../../../../root/.nimble/pkgs/hts-0.3.14/hts/private/hts_concat.nim
CC: stdlib_strformat.nim
CC: ../../../../root/.nimble/pkgs/hts-0.3.14/hts/bam.nim
CC: ../../../../root/.nimble/pkgs/hts-0.3.14/hts/vcf.nim
CC: ../../../../root/.nimble/pkgs/hts-0.3.14/hts.nim
CC: ../../../../root/.nimble/pkgs/distributions-0.1.0/distributions/rmath.nim
CC: stdlib_streams.nim
CC: sscocaller.nim
Hint:  [Link]
Hint: 86700 LOC; 4.603 sec; 175.273MiB peakmem; Release build; proj: /builds/biocellgen-public/sscocaller/src/sscocaller; out: /builds/biocellgen-public/sscocaller/src/xx_exe_out [SuccessX]
wrote executable: sscocaller
$ ls -l ./src
total 2592
-rwxr-xr-x    1 root     root       2627344 Mar  2 00:43 sscocaller
-rwxrwxrwx    1 root     root         22800 Feb 24 04:23 sscocaller.nim
section_end:1614645795:step_script
section_start:1614645795:upload_artifacts_on_success
Uploading artifacts for successful job
Uploading artifacts...
./src/sscocaller: found 1 matching files and directories 
Uploading artifacts as "archive" to coordinator... ok  id=17475 responseStatus=201 Created token=TYmx_a6A
section_end:1614645796:upload_artifacts_on_success
section_start:1614645796:cleanup_file_variables
Cleaning up file based variables
section_end:1614645797:cleanup_file_variables
Job succeeded