Plot-vcfstats invalid syntax error

[rbutleriii]

Encountered an error in plot-vcfstats as compiled in #1033 (with LD_LIBRARY_PATH set). Precompiled release version 1.9 works correctly with script:

# variables
infile="clinotator.ambry.dbSNP151.anno.vcf.gz"
outname="all"

# first some overall ClinVar variant stats
bcftools stats \
  -e 'INFO/CVCS ~ ""' \
  $infile > CV_${outname}.vchk
plot-vcfstats -p CV_${outname} CV_${outname}.vchk

With the compiled 1.9dev version I get the following error:

Parsing bcftools stats output: CV_all.vchk
Use of uninitialized value $xmin in concatenation (.) or string at /data/software/bcftools-1.9dev/bin/plot-vcfstats line 1625.
Use of uninitialized value $xmax in concatenation (.) or string at /data/software/bcftools-1.9dev/bin/plot-vcfstats line 1625.
Plotting graphs: python3 plot.py
  File "plot.py", line 223
    ax1.plot([,], [0.5,0.5],color='#c5c5c5')
              ^
SyntaxError: invalid syntax
The command exited with non-zero status 256:
        python3 plot.py

 at /data/software/bcftools-1.9dev/bin/plot-vcfstats line 111.
        main::error("The command exited with non-zero status 256:\x{a}\x{9}python3 plot.py\x{a}\x{a}") called at /data/software/bcftools-1.9dev/bin/plot-vcfstats line 300
        main::plot(HASH(0xdda050)) called at /data/software/bcftools-1.9dev/bin/plot-vcfstats line 7

Environment details:
CPE_NAME="cpe:/o:redhat:enterprise_linux:7.6:GA:server"
pdfTeX 3.14159265-2.6-1.40.20 (TeX Live 2019)
conda environment.yml

name: clinotator
channels:
  - bioconda
  - defaults
  - conda-forge
dependencies:
  - biopython=1.73=py36h14c3975_0
  - blas=1.0=mkl
  - ca-certificates=2019.1.23=0
  - certifi=2019.3.9=py36_0
  - cycler=0.10.0=py36_0
  - dbus=1.13.6=h746ee38_0
  - expat=2.2.6=he6710b0_0
  - fontconfig=2.13.0=h9420a91_0
  - freetype=2.9.1=h8a8886c_1
  - glib=2.56.2=hd408876_0
  - gst-plugins-base=1.14.0=hbbd80ab_1
  - gstreamer=1.14.0=hb453b48_1
  - icu=58.2=h9c2bf20_1
  - intel-openmp=2019.3=199
  - jpeg=9b=h024ee3a_2
  - kiwisolver=1.1.0=py36he6710b0_0
  - libedit=3.1.20181209=hc058e9b_0
  - libffi=3.2.1=hd88cf55_4
  - libgcc-ng=8.2.0=hdf63c60_1
  - libgfortran-ng=7.3.0=hdf63c60_0
  - libpng=1.6.37=hbc83047_0
  - libstdcxx-ng=8.2.0=hdf63c60_1
  - libtiff=4.0.10=h2733197_2
  - libuuid=1.0.3=h1bed415_2
  - libxcb=1.13=h1bed415_1
  - libxml2=2.9.9=he19cac6_0
  - matplotlib=3.1.0=py36h5429711_0
  - mkl=2018.0.3=1
  - mmtf-python=1.1.2=py_0
  - msgpack-python=0.6.1=py36hfd86e86_1
  - ncurses=6.1=he6710b0_1
  - numpy=1.12.1=py36he24570b_1
  - olefile=0.46=py36_0
  - openssl=1.1.1c=h7b6447c_1
  - pandas=0.24.2=py36he6710b0_0
  - pcre=8.43=he6710b0_0
  - pillow=6.0.0=py36h34e0f95_0
  - pip=19.1.1=py36_0
  - pyparsing=2.4.0=py_0
  - pyqt=5.9.2=py36h05f1152_2
  - python=3.6.8=h0371630_0
  - python-dateutil=2.8.0=py36_0
  - pytz=2019.1=py_0
  - qt=5.9.7=h5867ecd_1
  - readline=7.0=h7b6447c_5
  - reportlab=3.5.19=py36he686d34_0
  - setuptools=41.0.1=py36_0
  - sip=4.19.8=py36hf484d3e_0
  - six=1.12.0=py36_0
  - sqlite=3.28.0=h7b6447c_0
  - tk=8.6.8=hbc83047_0
  - tornado=6.0.2=py36h7b6447c_0
  - wheel=0.33.2=py36_0
  - xz=5.2.4=h14c3975_4
  - zlib=1.2.11=h7b6447c_3
  - zstd=1.3.7=h0b5b093_0

[pd3]

Thank you for the bug report. This is now fixed by 934cbb5 .