Traceback (most recent call last):


 "/usr/local/bin/bcbio_nextgen.py", line 234, in <module>

main(**kwargs)


 "/usr/local/bin/bcbio_nextgen.py", line 43, in main

run_main(**kwargs)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/pipeline/main.py", line 42, in run_main

fc_dir, run_info_yaml)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/pipeline/main.py", line 86, in _run_toplevel

for xs in pipeline(config, run_info_yaml, parallel, dirs, samples):


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/pipeline/main.py", line 154, in variant2pipeline

samples = run_parallel("postprocess_variants", samples)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/distributed/multi.py", line 28, in run_parallel

return run_multicore(fn, items, config, parallel=parallel)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/distributed/multi.py", line 86, in run_multicore

for data in joblib.Parallel(parallel["num_jobs"], batch_size=1)(joblib.delayed(fn)(x) for x in items):


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/joblib/parallel.py", line 804, in __call__

while self.dispatch_one_batch(iterator):


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/joblib/parallel.py", line 662, in dispatch_one_batch

self._dispatch(tasks)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/joblib/parallel.py", line 570, in _dispatch

job = ImmediateComputeBatch(batch)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/joblib/parallel.py", line 183, in __init__

self.results = batch()


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/joblib/parallel.py", line 72, in __call__

return [func(*args, **kwargs) for func, args, kwargs in self.items]


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/utils.py", line 50, in wrapper

return apply(f, *args, **kwargs)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/distributed/multitasks.py", line 182, in postprocess_variants

return variation.postprocess_variants(*args)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/pipeline/variation.py", line 81, in postprocess_variants

data[vrn_key] = prioritize.handle_vcf_calls(data[vrn_key], data, orig_items)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/variation/prioritize.py", line 35, in handle_vcf_calls

ann_vcf = vcfanno.run_vcfanno(vcf_file, ["gemini"], data, data_basepath)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/variation/vcfanno.py", line 82, in run_vcfanno

out_file = vcfanno(vcf, out_file, conf_fns, data, data_basepath or basepath, lua_fns)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/variation/vcfanno.py", line 27, in vcfanno

do.run(cmd.format(**locals()), message)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/provenance/do.py", line 23, in run

_do_run(cmd, checks, log_stdout, env=env)


 "/usr/local/share/bcbio-nextgen/anaconda/lib/python2.7/site-packages/bcbio/provenance/do.py", line 103, in _do_run

raise subprocess.CalledProcessError(exitcode, error_msg)
subprocess.CalledProcessError: Command 'set -o pipefail; /usr/local/share/bcbio-nextgen/anaconda/bin/vcfanno -p 8 -lua /usr/local/share/bcbio-nextgen/genomes/Hsapiens/hg38/config/vcfanno/gemini.lua -base-path /usr/local/share/bcbio-nextgen/genomes/Hsapiens/hg38 /usr/local/share/bcbio-nextgen/genomes/Hsapiens/hg38/config/vcfanno/gemini.conf /bcbio/work/freebayes/MO_1541_SI_16903-effects-annotated-filter.vcf.gz | sed -e 's/Number=A/Number=1/g' | bgzip -c > /bcbio/work/bcbiotx/tmpUGlPLD/MO_1541_SI_16903-effects-annotated-filter-annotated-gemini.vcf.gz

Traceback (most recent call last):

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/web.py", line 1469, in _execute
result = yield result

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/gen.py", line 1015, in run
value = future.result()

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/concurrent.py", line 237, in result
raise_exc_info(self._exc_info)

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/gen.py", line 270, in wrapper
result = func(*args, **kwargs)

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/bokeh/server/views/root_handler.py", line 32, in get
self.render("app_index.html", items=self.applications.keys())

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/web.py", line 719, in render
html = self.render_string(template_name, **kwargs)

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/web.py", line 823, in render_string
t = loader.load(template_name)

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/template.py", line 427, in load
self.templates[name] = self._create_template(name)

 "/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/tornado/template.py", line 454, in _create_template
with open(path, "rb") as f:IOError: [Errno 2] No such file or directory: '/home/tsnyder/miniconda/envs/bokeh_sep01/lib/python2.7/site-packages/bokeh/server/views/app_index.html'