sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
4fd04116c67f08a80b3dc463bdda61bcde076a6651a8c9da6c9e8de538873b34 | Shell | 3,891 | 87 | #!/bin/bash
#usage: ./copy_reports_to_minio.sh </path/to/family/results/dir> <NGS type: wgs or wes> <OPTIONAL: multiqc> <OPTIONAL: coverages>
family_dir=$1
NGS_type=$2
multiqc=$3
coverages=$4
mc=/hpf/largeprojects/ccmbio/ccmmarvin_shared/data_transfers/mc
if [ -z $family_dir ]; then
echo 'Must specify resul... |
8941a8f7fb83321c6f481836c71596451f1fa365299ab9e85ef1dcbad8843796 | Shell | 3,896 | 115 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Author: Daniel Povey) 2012. Apache 2.0.
# begin configuration section.
cmd=run.pl
stage=0
decode_mbr=true
beam=4 # Use a fairly narrow beam because lattice-align-words is slow-ish.
word_ins_penalty=0.5
min_lmwt=7
max_lmwt=17
cleanup=true
model=
#end configur... |
52a1d25914deff0dfa279849cb8bc412e995c7345c6900fbe6bea7b64cf7fd93 | Shell | 3,897 | 117 | #!/usr/bin/env bash
# This is modified from swbd/s5c/local/nnet3/run_tdnn.sh
# Tomohiro Tanaka 15/05/2016
# this is the standard "tdnn" system, built in nnet3; it's what we use to
# call multi-splice.
. ./cmd.sh
# At this script level we don't support not running on GPU, as it would be painfully slow.
# If you want... |
2d99f7718121a8c76d3108c8a8e18c4a4a5c34f139055b5911d12ffb3236b289 | Shell | 3,901 | 95 | #!/bin/bash -l
# Batch script to run a serial array job under SGE
# Request 20 minutes of wallclock time (format hours:minutes:seconds).
# one job ran on frontend was 2 min
#$ -l h_rt=1:0:0
# Request 1 gigabyte of RAM (must be an integer followed by M, G, or T)
# /usr/bin/time --verbose codeml gave Maximum resident ... |
d013831123030a97dcf518287c2eade068c08a2132bf9594a198a935a23e550f | Shell | 3,910 | 103 | #!/bin/bash
# model selection scripts keep the same structure for every software
# ARGS: input_msa output_dir restore_ckp skip_eval data_type
# restore_ckp = {true, false}
# skip_eval = {true, false}
# data_type = {nt, aa}
#
# OUTPUT:
# time [execution_time]
# BIC [best_bic_model] [... |
1701487403aaeab819e93310cb399ca5da510247e4846b182f6471e5f125ae4e | Shell | 3,911 | 118 | #!/usr/bin/env bash
# run_cnn_aug_1b is the same as run_cnn_1e but with data augmentation.
# accuracy is 0.857, vs. 0.83 for the un-augmented baseline.
# exp/cnn_aug_1b_cifar10: num-iters=60 nj=1..2 num-params=2.2M dim=96->10 combine=-0.40->-0.38 loglike:train/valid[39,59,final]=(-0.35,-0.26,-0.26/-0.47,-0.42,-0.42)... |
6a8c6646200fe306731e2d72d53ed7eccceb2479a56020711c4565edb34af3a4 | Shell | 3,911 | 118 | #!/usr/bin/env bash
# 1e is as 1d but making the time subsampling symmetric with the
# height subsampling (unfortunately this symmetry is not very visible
# to the eye at the config level); and adding another convolutional
# layer.
# It's slightly better (0.82 -> 0.83), and of course it will be faster
# (it als... |
97bd8610c934e1262a95f9d1af5a8ab6516313a2da57e0ffdcc68a8248fe7001 | Shell | 3,924 | 123 | #!/bin/bash -e
# Copyright 2014 QCRI (author: Ahmed Ali)
# Apache 2.0
num_jobs=120
num_decode_jobs=40
decode_gmm=true
stage=0
overwrite=false
dir1=/export/corpora/LDC/LDC2013S02/
dir2=/export/corpora/LDC/LDC2013S07/
dir3=/export/corpora/LDC/LDC2014S07/
text1=/export/corpora/LDC/LDC2013T17/
text2=/export/corpora/LDC/... |
bf2c000b74fd0eef617cfdbd565f5c36fcdeff14d01511a7541f5eef90e4beac | Shell | 3,932 | 148 | #! /usr/bin/env bash
if [[ -f revdep/data.sqlite ]]; then
>&2 echo "ERROR: To wipe existing results, remove 'revdep/data.sqlite' first"
exit 1
fi
## Missing or outdated LaTeX packages
false && R --quiet --no-save <<EOF
tinytex::install_tinytex(force = TRUE)
message("TeX root: ", tinytex::tinytex_r... |
33a092ba66126e0b6dc9e6a4216e37faa250d8d0d7d00fa455e477d376e89fb7 | Shell | 3,936 | 140 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
33f110917a1a1c6e9716c95ef4a573d94e4cf27bdca23362c2efdd56cc0c8b24 | Shell | 3,940 | 103 | #!/usr/bin/env bash
# Copyright 2014 Johns Hopkins University (Author: Yenda Trmal)
# Apache 2.0
# Begin configuration section.
nj=4
cmd=run.pl
acwt=0.1
# End configuration section.
echo "$0 $@" # Print the command line for logging
[ -f ./path.sh ] && . ./path.sh; # source the path.
. parse_options.sh || exit 1;
... |
72e4a5f0b55b507e4d311debabb820ece58fbfc4eb1404cf88159a22d6af4458 | Shell | 3,941 | 117 | #!/usr/bin/env bash
# This script is based on swbd/s5c/local/nnet3/run_tdnn.sh
# this is the standard "tdnn" system, built in nnet3; it's what we use to
# call multi-splice.
# At this script level we don't support not running on GPU, as it would be painfully slow.
# If you want to run without GPU you'd have to call ... |
c6044dd02f7d9629c8cbad04338bc5bc73830241c5e08873f3843dd6a83fc5ae | Shell | 3,944 | 92 | #!/usr/bin/env bash
. ./cmd.sh
. ./path.sh
set -e
if [ -e data/train_dev ] ;then
dev_set=train_dev
fi
#:<<"#SKIP"
# This runs on all the data data/train_nodup; the triphone baseline, tri4 is
# also trained on that set.
. utils/parse_options.sh || exit 1;
if [ ! -f exp/ubm5/final.ubm ]; then
steps/train_ubm.... |
09e6e092685fec3993dd95f274565c61bd95a3764d36357a21ebab5b78ef66f6 | Shell | 3,945 | 103 | #!/bin/bash
rm count_files.txt
rm data.txt
python countPatchDockPoses.py 3F74_A_B
python countPatchDockPoses.py 3HRD_E_H
python countPatchDockPoses.py 1ERN_A_B
python countPatchDockPoses.py 2B3Z_C_D
python countPatchDockPoses.py 4KGG_C_A
python countPatchDockPoses.py 2FE8_A_C
python countPatchDockPoses.py 1SOT_A_C
pyth... |
77ab54ab00ae6ffa228610fb8dc537c89729e7f99aa44fb5683e0fd8575d5a03 | Shell | 3,945 | 129 |
# This script runs first step to making GeneNetwork: select samples
set -e
set -u
project_dir=
outdir=
config_templates=
jardir=
sample_file=
expression_file=
main(){
module load Java/1.8.0_144-unlimited_JCE
parse_commandline "$@"
echo "rsync -vP $config_templates/1_config_SelectSamples.json $project_di... |
8f001d5f1ea578f7ba7ddc8c16475ecce3709145166ed98d2b7c873850f29111 | Shell | 3,947 | 120 | #!/usr/bin/env bash
# Copyright 2014 University of Edinburgh (Author: Pawel Swietojanski)
# 2016 Johns Hopkins University (Author: Daniel Povey)
# AMI Corpus training data preparation
# Apache 2.0
# Note: this is called by ../run.sh.
. ./path.sh
#check existing directories
if [ $# != 3 ] || [ $2 != "ih... |
1170df14014852bd19e2d3558c179c439df4802a3b960f1e04ff0c9e9382c8b1 | Shell | 3,949 | 125 | #!/usr/bin/env bash
# Copyright 2015 University of Sheffield (Jon Barker, Ricard Marxer)
# Inria (Emmanuel Vincent)
# Mitsubishi Electric Research Labs (Shinji Watanabe)
# Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0)
# Copyright 2015, Mitsubishi Electric Research Laboratorie... |
91781a00f69be9035d87ce6cffb9fb638003e9a9cf8285221fd054b6966787e7 | Shell | 3,956 | 97 | #!/bin/bash -l
# Batch script to run a serial array job under SGE
# Request 20 minutes of wallclock time (format hours:minutes:seconds).
# one job ran on frontend was 2 min
#$ -l h_rt=1:0:0
# Request 1 gigabyte of RAM (must be an integer followed by M, G, or T)
# /usr/bin/time --verbose codeml gave Maximum resident ... |
1e5e960ea123a1669f7c09455033606c103ec3be16549efd902bed7011f153bb | Shell | 3,963 | 124 | #!/bin/bash -e
# Creating a UEM decoding setup with CMU segmentation from Florian (Feb 15, 2013).
dummy_text=true
text=
filelist=
#end of configuration
[ -f ./path.sh ] && . ./path.sh
[ -f ./cmd.sh ] && . ./cmd.sh
. parse_options.sh || exit 1;
if [ $# -ne 3 ] ; then
echo "$0: Converts the CMU segmentation databas... |
a54986b7d37d9459615cc9a510d5075b62a1de61c9e8f6140811baaab421f9eb | Shell | 3,965 | 86 | #!/usr/bin/env bash
# Self-contained environment for the visualize-ros-rviz skill.
# Source before the other scripts: source env.sh
#
# This skill drives the ROS 2 tooling that ships INSIDE a CARLA checkout
# (PythonAPI/examples/ros2), from Docker images built on demand. It needs no
# local ROS 2 installation and neve... |
87d53ecf67e5c6466c03204e525774b3f3e0127a1fb4b5792654a37ac8fae481 | Shell | 3,967 | 94 | #!/bin/bash -l
# Batch script to run a serial array job under SGE
# Request 20 minutes of wallclock time (format hours:minutes:seconds).
# one job ran on frontend was 2 min
#$ -l h_rt=0:20:0
# Request 1 gigabyte of RAM (must be an integer followed by M, G, or T)
# /usr/bin/time --verbose codeml gave Maximum resident... |
ba0f85bd88a6baf4933b520283a491d698def1899ccbdc6a6201f7f7402e1a68 | Shell | 3,973 | 125 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Author: Daniel Povey, Vijayaditya Peddinti) 2016. Apache 2.0.
# This script does online decoding, unlike local/nnet3/decode.sh which does 2-pass decoding with
# uniform segments.
set -e
# general opts
iter=
stage=0
decode_num_jobs=30
num_jobs=30
affix=
# se... |
415ab244cf6976bb7079323a61e34540db3818f89dbec98462c3a2f20a826696 | Shell | 3,979 | 124 | #!/bin/bash -e
# Creating a UEM decoding setup with CMU segmentation from Florian (Feb 15, 2013).
dummy_text=true
text=
filelist=
#end of configuration
[ -f ./path.sh ] && . ./path.sh
[ -f ./cmd.sh ] && . ./cmd.sh
. parse_options.sh || exit 1;
if [ $# -ne 3 ] ; then
echo "$0: Converts the CMU segmentation databas... |
88fbae562cae5d6469f1c80cf4c1c202d0c40dcdda8fa673887b54becdd20c3a | Shell | 3,982 | 131 | #!/bin/bash
# Copyright 2020-2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable... |
17b1454dc2da2e11e73ac40f2a40848f9b49bc1f4ec8143b2f8891d6371e91a3 | Shell | 3,987 | 114 | #!/usr/bin/env bash
# To be run from one directory above this script.
lexicon=data/local/dict/lexicon.txt
[ ! -f $lexicon ] && echo "$0: No such file $lexicon" && exit 1;
# check if sri is installed or no
sri_installed=false
which ngram-count &>/dev/null
if [[ $? == 0 ]]; then
sri_installed=true
fi
# This script... |
dee29bb59c2317bf87d5143dd9049fa637fc6b37e805b7711573f3c69ecb41c1 | Shell | 3,988 | 94 | # Copyright 2015 Johns Hopkins University (Authors: Vijayaditya Peddinti). Apache 2.0.
set -e
beam=7
decode_mbr=true
filter_ctm_command=cp
glm=
stm=
resolve_overlaps=true
[ -f ./path.sh ] && . ./path.sh
. parse_options.sh || exit 1;
echo $*
if [ $# -ne 6 ]; then
echo "Usage: $0 [options] <LMWT> <word-ins-penalt... |
af51cae1ee0b60d5155ca61ce2630539dc4dff6f1d324b438ac85e6204efa1fb | Shell | 3,990 | 134 |
# This script runs 3rd step to making GeneNetwork: quantile normalisation before PCA
set -e
set -u
project_dir=
outdir=
jardir=
expression_file=
mem=
main(){
module load Java/1.8.0_144-unlimited_JCE
parse_commandline "$@"
java -Xmx$mem -Xms$mem -jar $jardir/eqtl-mapping-pipeline.jar \
--mode nor... |
a9cd5da7eada138de46088495f7ed998814460fa59d0842407351fcf3b8d6d0b | Shell | 3,998 | 111 | #!/usr/bin/env bash
set -e
# Copyright 2009-2012 Microsoft Corporation Johns Hopkins University (Author: Daniel Povey)
# Apache 2.0.
# This is modified from the script in standard Kaldi recipe to account
# for the way the WSJ data is structured on the Edinburgh systems.
# - Arnab Ghoshal, 29/05/12
# Modified from... |
49fa0ea1c56dc05e0c96c85673fb8384436504e0bb27f2f06ef3d88c5682bcd4 | Shell | 4,001 | 139 | #!/usr/bin/env bash
# this script is used for comparing decoding results between systems.
# e.g. local/nnet3/compare_wer.sh exp/nnet3/tdnn_{c,d}_sp
# For use with discriminatively trained systems you specify the epochs after a colon:
# for instance,
# local/nnet3/compare_wer.sh exp/nnet3/tdnn_c_sp exp/nnet3/tdnn_c_sp_... |
42616313bd3d07fb643b79dbe2ce45f941931ba3a37fa033c8913fa704eaaf50 | Shell | 4,003 | 116 | #!/usr/bin/env bash
# To be run from one directory above this script.
lexicon=data/local/dict/lexicon.txt
[ ! -f $lexicon ] && echo "$0: No such file $lexicon" && exit 1;
# check if sri is installed or no
sri_installed=false
which ngram-count &>/dev/null
if [[ $? == 0 ]]; then
sri_installed=true
fi
# This scri... |
194540ff7c86da430813ce177ff5300533f027eb6135fb6ba366b78852f597dd | Shell | 4,004 | 111 | #!/usr/bin/env bash
# Copyright 2013 Johns Hopkins University (authors: Yenda Trmal)
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# THIS C... |
8299c6bdeeed2c7a0957a87acd7a64accb8a9c4b0ff38ab7a761d7d97d0a1b54 | Shell | 4,004 | 139 | #!/bin/bash
# Stop on error
set -e
## conda environment name
ENV_NAME=aquas_chipseq
ENV_NAME_PY3=aquas_chipseq_py3
INSTALL_GEM=1
INSTALL_PEAKSEQ=1
## install packages from official channels (bioconda and r)
conda create -n ${ENV_NAME} --file requirements.txt -y -c defaults -c bioconda -c r -c bcbio -c daler -c asm... |
ba660d7bffffba98ae8f3dc2852971c28ac8044a0ad95519fa50da281edbf450 | Shell | 4,005 | 145 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
4d9471810e8d728d89589ddd1da687a8c719483a37262b42dd623a14ca8fb811 | Shell | 4,008 | 146 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
cf4bbc832dfedb069d28659e3fa0b1b3f1b67f1d96adbea748ccb7493a663ea8 | Shell | 4,012 | 154 | #!/bin/bash
#
# 1. The script issues shutdown command via the graceful shutdown command
# If unsuccessful then it exits with 1.
# 2. If the code is ok then it checks if jibri has exited.
# 3. If not then it polls jibri statistics until recording status is not true
# 4. Gives some time for jibri to shutdown. If it do... |
7da5da4a48061c0a77c96529d75c3c40f6c0aeeab0216a5832c03132f393bab2 | Shell | 4,019 | 151 | #!/bin/bash
# Copyright 2020-2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable... |
feba38d4830fe3f508b7e28caf9b66b7c81e221d6051d326f48db0fe2c48b00d | Shell | 4,024 | 114 | #!/bin/bash -u
. ./cmd.sh
. ./path.sh
# DNN training. This script is based on egs/swbd/s5b/local/run_dnn.sh
# Shinji Watanabe, Karel Vesely,
# Config:
nj=80
nj_decode=30
stage=0 # resume training with --stage=N
. utils/parse_options.sh || exit 1;
#
if [ $# -ne 1 ]; then
printf "\nUSAGE: %s [opts] <mic condition(i... |
cba012a836b6419c970fe32234b70a5412af84de0b24376e6c0f33a5793c759d | Shell | 4,032 | 111 | #!/usr/bin/env bash
set -e
# Copyright 2009-2012 Microsoft Corporation Johns Hopkins University (Author: Daniel Povey)
# Apache 2.0.
# This is modified from the script in standard Kaldi recipe to account
# for the way the WSJ data is structured on the Edinburgh systems.
# - Arnab Ghoshal, 29/05/12
# Modified from... |
e3bf93a735e37de397e32043c18fb057a23dae5aa3978c079cf61a1d588e8f94 | Shell | 4,033 | 110 | #!/usr/bin/env bash
# Copyright 2016 Vincent Nguyen
# 2016 Johns Hopkins University (author: Daniel Povey)
# 2017 Ashish Arora
# 2017 Hossein Hadian
# Apache 2.0
#
# This script trains a LM on the YOMDLE training transcriptions.
# It is based on the example scripts distributed with Po... |
01220b93efdd6c74af0f34fc2cf9a595474359cad8d18627b066540377c311d1 | Shell | 4,036 | 129 |
# This script runs first step to making GeneNetwork: select samples
set -e
set -u
project_dir=
outdir=
config_templates=
sample_file=
expression_file=
github_dir=
main(){
module load Java/1.8.0_144-unlimited_JCE
parse_commandline "$@"
echo "rsync -vP $config_templates/1_config_SelectSamples.json $projec... |
23432d213cde3a63b6860be702787e52e982b0870ba318b74f4253607b4edc01 | Shell | 4,043 | 141 | #!/usr/bin/env bash
function GETAPPROVAL {
until false ; do
echo "Do you want to run the command (y/n)?"
read -n 1 WISH
if [ "$WISH" == "y" ]; then
return true;
elif [ "$WISH" == "n" ]; then
return false;
fi
done
}
function ESCAPE_PARAMS {
local out=""
for v in "$@"; do
... |
b273871129470f19e87c558902915fa8040ab7bc7f72421c49531e70d659fe60 | Shell | 4,048 | 147 | #!/bin/sh
set -e
. scripts/common.sh
testdir=test/chr22_meth_example
bamfile=$testdir/reads.sorted.bam
ref=$testdir/humangenome.fa
reads=$testdir/reads.fastq
batchsize=512
bases=100M
disable_cuda=yes
thread_loop=true
readlen_mode=false
if command -v nproc > /dev/null
then
threads=$(nproc --all)
else
threads=8
fi
f... |
8f32ac2d163fa44d046a0939253db1a4dc21583998712413ad77f06ba8b3e22d | Shell | 4,051 | 130 | #!/usr/bin/env bash
# Copyright 2020 Guoguo Chen
# 2021 Xiaomi Corporation (Author: Yongqing Wang)
# This script trains LMs on the whole LM-training data.
set -e -o pipefail
# Begin configuration section.
stage=0
train_stage=-10
dir=exp/rnnlm
ac_model_dir=exp/chain_cleaned/cnn_tdnn_1c_sp
lang=data/lang_... |
8a80843220b6beb0577da7d4f92db25b6138be58e6b36e3b904aace293886dbc | Shell | 4,055 | 141 | #!/usr/bin/env bash
function GETAPPROVAL {
until false ; do
echo "Do you want to run the command (y/n)?"
read -n 1 WISH
if [ "$WISH" == "y" ]; then
return true;
elif [ "$WISH" == "n" ]; then
return false;
fi
done
}
function ESCAPE_PARAMS {
local out=""
for v in "$@"; d... |
3cc08787a702d9f7d00846d3248e95c7214fc60247064a5f3a15c3b3ede1967a | Shell | 4,064 | 130 | #!/usr/bin/env bash
# Copyright 2020 Desh Raj (Johns Hopkins University)
# Apache 2.0
# This script trains an overlap detector. It is based on the Aspire
# speech activity detection system. We train with 3 targets:
# silence, single, and overlap. As such, at decode time, this
# can also be used as an SAD system.
... |
8ce5b347f4fc5c5054fe9c0bac39de2d28e17e49104f198f0eb01031c69194db | Shell | 4,065 | 109 | #!/usr/bin/env bash
set -e
# Copyright 2009-2012 Microsoft Corporation Johns Hopkins University (Author: Daniel Povey)
# Apache 2.0.
# This is modified from the script in standard Kaldi recipe to account
# for the way the WSJ data is structured on the Edinburgh systems.
# - Arnab Ghoshal, 29/05/12
# Modified from... |
3e17981f57fe0bf58c5dcf1a8f506a559e6808bce8c506617a2a0534740f7243 | Shell | 4,066 | 134 | ml Java
ml plink
ml Python/2.7.12-foss-2015b
dsname=$1
dsdir=$2
snpmapref=/groups/umcg-biogen/tmp03/annotation/SNPMappings-dbsnp151-b38.txt.gz
kgbim=/groups/umcg-biogen/tmp03/annotation/1kgp3v5a-20190312-b38/ALL-merged-common.bim
kgpedmap=/groups/umcg-biogen/tmp03/annotation/1kgp3v5a-20190312-b38/ALL-merged-common
... |
ee048d1c2e3f603c454e8e4ee2edf9f5ef348347d041baae21906af561639c12 | Shell | 4,071 | 122 | #!/usr/bin/env bash
# shellcheck source=../utils.sh
source $( cd -- "$(dirname "$0")" >/dev/null 2>&1 ; pwd -P )/../utils.sh
# Check if there is input
[[ ( $# -eq 0 ) ]] && displayhelp $0 1
# Preparing the default values for variables
anat_in=none
aseg_in=none
bbr=no
tmp=.
### print input
printline=$( basename -- $... |
5ce7a4a4b393ee7da0600672074d90ad8bf3e4fb01d776a560231a41d5f7296e | Shell | 4,086 | 112 | #!/usr/bin/env bash
set -e
# Copyright 2009-2012 Microsoft Corporation Johns Hopkins University (Author: Daniel Povey)
# Apache 2.0.
# This is modified from the script in standard Kaldi recipe to account
# for the way the WSJ data is structured on the Edinburgh systems.
# - Arnab Ghoshal, 29/05/12
# Modified from ... |
771d1097e3fd22e1f038593b07047072e3929e68accfea6cb0591ef987ed22d5 | Shell | 4,093 | 100 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Author: Daniel Povey) 2012. Apache 2.0.
# This script produces CTM files from a decoding directory that has lattices
# present. This version gives you confidence scores using MBR decoding.
# See also steps/get_ctm.sh
# begin configuration section.
cmd=run.p... |
54e79714321ceb8633be673cc72f275a512a8e30e174c8b49d50b4c1d75a6843 | Shell | 4,095 | 121 | #!/usr/bin/env bash
# note: the final 'valid accuracy' (0.69) is actually the test accuracy.
# steps/info/nnet3_dir_info.pl exp/cnn1a_cifar10
# exp/cnn1a_cifar10: num-iters=60 nj=1..2 num-params=0.2M dim=96->10 combine=-0.04->-0.02 loglike:train/valid[39,59,final]=(-0.18,-0.02,-0.02/-1.08,-1.38,-1.39) accuracy:train... |
e8542a68c1c37bb002cd334e5e59db50d9860a9212a879abf988b4fa47a2a1d0 | Shell | 4,096 | 72 | #!/usr/bin/env bash
# Prerequisite checks for download-carla. Read-only, no sudo, downloads nothing.
# Exits non-zero only on hard blockers (no way to fetch, or no space to fetch into).
# On-camera banner: every skill run announces itself, so a terminal recording
# shows which skill is doing the work rather than just i... |
9e37e54a68cd8df448d9bfdf06694140544b4a37462350ad685eadc7e23f8673 | Shell | 4,103 | 119 | #!/usr/bin/env bash
#
# stop_all.sh -- tear down everything run_carla_autoware.sh started.
#
# Reads the pidfile written by run_carla_autoware.sh (<log-dir>/carla_autoware.pids,
# lines of "<name> <pid>") and kills ONLY those exact process groups, in reverse
# start order: SIGTERM first, SIGKILL after a grace period. T... |
3c0382a9791a7daa183f2dd8ce5185996b5dd5bf24e52b286abcba1ba20ed31e | Shell | 4,105 | 113 | #!/usr/bin/env bash
# RT-03 data preparation (conversational telephone speech part only)
# Adapted from Arnab Ghoshal's script for Hub-5 Eval 2000 by Peng Qi
# To be run from one directory above this script.
# Expects the standard directory layout for RT-03
if [ $# -ne 1 ]; then
echo "Usage: $0 <rt03-dir>"
echo... |
27927c4396b9953eeb8a17c71e43b420030c77bedae456f18b51138ca95b2973 | Shell | 4,107 | 111 | #!/usr/bin/env bash
# To be run from one directory above this script.
text=data/train_all/text
lexicon=data/local/dict/lexicon.txt
for f in "$text" "$lexicon"; do
[ ! -f $x ] && echo "$0: No such file $f" && exit 1;
done
# This script takes no arguments. It assumes you have already run
# fisher_data_prep.sh a... |
622ac78fce5b8c000518605219a7246d0b19f7c16672724036dca3235b64f23a | Shell | 4,107 | 92 | #!/bin/bash
set -euxo pipefail
echo $PATH
sf_marker='GABAergic_markers_fc.txt,Glutamatergic_markers_fc.txt,Non.Neuronal_markers_fc.txt'
ta_marker='tasic2016_gaba.csv,tasic2016_glu.csv,tasic2016_gli.csv'
cu_marker='cusanovich2018_inh.txt,cusanovich2018_ext.txt,cusanovich2018_gli.txt'
tn_marker='tasic2018_gaba.txt,tasic2... |
c8f33182efc4e0e983cbea317799ae21ab5e696b1541289f62d8de9fb37f83bf | Shell | 4,119 | 83 | #!/usr/bin/env bash
# Prerequisite checks for install-scenario-runner. Read-only, no sudo.
# Hard blockers: no git, no pip, no importable carla (nothing to match against).
# On-camera banner: every skill run announces itself, so a terminal recording
# shows which skill is doing the work rather than just its output. The... |
288e6decfb4b9f17ca339b00073efd857d5e915de54512fd999ec942263de30b | Shell | 4,121 | 147 | #!/bin/bash
# Copyright 2019 Nagoya University (Takenori Yoshimura)
# 2019 RevComm Inc. (Takekatsu Hiramura)
# Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0)
if [ ! -f path.sh ] || [ ! -f cmd.sh ]; then
echo "Please change current directory to recipe directory e.g., egs/Uzbek_ASR/asr1"
ex... |
19ae4eb8dc90efa817cdbeb61703c03a20cb0ab47ce4076947fc73003b14b09b | Shell | 4,123 | 119 | #!/usr/bin/env bash
set -e
# Copyright 2009-2012 Microsoft Corporation Johns Hopkins University (Author: Daniel Povey)
# Apache 2.0.
# This is modified from the script in standard Kaldi recipe to account
# for the way the WSJ data is structured on the Edinburgh systems.
# - Arnab Ghoshal, 29/05/12
if [ $# -ne 1 ]... |
ca4ccc8418f08d41a839aca425a09af47631fb2b808e65632c0b55bef9efd7c7 | Shell | 4,140 | 77 | #!/bin/bash -e
# This script was downloaded from http://www.pymolwiki.org/index.php/Linux_Install
pymoldir=$HOME/programming/pymol
modules=$pymoldir/modules
svnpymol=svnpymol
svnfreemol=svnfreemol
pymolscriptrepo=Pymol-script-repo
###################################################
[ -d $pymoldir ] || mkdir -p $pymol... |
da6f1749b9bf4201e398ca662ec9652c14f0ce6eeb4ebf8a9f6183121ff23f8d | Shell | 4,145 | 124 | #!/usr/bin/env bash
# Copyright (c) 2018, Johns Hopkins University (Jan "Yenda" Trmal<jtrmal@gmail.com>)
# License: Apache 2.0
# Begin configuration section.
# End configuration section
. ./utils/parse_options.sh
. ./path.sh
set -e -o pipefail
set -o nounset # Treat unset variables as an... |
bbe307cd7253ac4e6017a702023960729d04624da1c4b5ccfc8b60ce73c186cb | Shell | 4,153 | 141 | #! /bin/bash
# ==============================================================================
# -- Set up environment --------------------------------------------------------
# ==============================================================================
source $(dirname "$0")/Environment.sh
# =====================... |
bdd05b408459d4bdcaaa27a1c41a51dd23900b4d1173373af0869a590987deba | Shell | 4,158 | 124 | #!/usr/bin/env bash
# Copyright (c) 2018, Johns Hopkins University (Jan "Yenda" Trmal<jtrmal@gmail.com>)
# License: Apache 2.0
# Begin configuration section.
# End configuration section
. ./utils/parse_options.sh
. ./path.sh
set -e -o pipefail
set -o nounset # Treat unset variables as an... |
e07678ddf79429942e971d0a728d0ed0810018f09ab987f7d724ea5d751e524d | Shell | 4,158 | 114 | #!/bin/bash -u
# Copyright 2012 Arnab Ghoshal
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# THIS CODE IS PROVIDED *AS IS* BASIS, WITHOUT... |
4b656b9f0bad8429c8e202decbaeaf81dad1accf0e3d654489eeb6be8dde4d1c | Shell | 4,166 | 119 | #!/bin/bash -u
. ./cmd.sh
. ./path.sh
# DNN training. This script is based on egs/swbd/s5b/local/run_dnn.sh
# Shinji Watanabe, Karel Vesely,
# Config:
nj=80
nj_decode=30
stage=0 # resume training with --stage=N
. utils/parse_options.sh || exit 1;
#
if [ $# -ne 1 ]; then
printf "\nUSAGE: %s [opts] <mic condition(i... |
f6236c714351ae72504e2a7b106254b851f5f03073bb8999e6c274ac66533678 | Shell | 4,168 | 114 | #!/usr/bin/env bash
# To be run from one directory above this script.
text=data/train_all/text
lexicon=data/local/dict/lexicon.txt
for f in "$text" "$lexicon"; do
[ ! -f $x ] && echo "$0: No such file $f" && exit 1;
done
# This script takes no arguments. It assumes you have already run
# fisher_data_prep.sh a... |
bb95541a14c51b12fed3c68fa9ecca09ceb077039c6da2ce4da95b50685da3ea | Shell | 4,172 | 124 | #!/usr/bin/env bash
# 1b is like 1a but a smaller model.
# The result is worse.
# steps/info/nnet3_dir_info.pl exp/cnn1b_cifar10
# exp/cnn1b_cifar10: num-iters=60 nj=1..2 num-params=0.1M dim=96->10 combine=-0.39->-0.31 loglike:train/valid[39,59,final]=(-0.55,-0.33,-0.31/-1.00,-1.16,-1.16) accuracy:train/valid[39,59,... |
11282c7e645d8fd05de93645b76f2d70f426e07f64f048dbc9e7d1129416c298 | Shell | 4,176 | 148 | #!/bin/bash
# Usage
# ./Depict2Run.sh <traitfile> <output folder> <parameterfile>
# Path to the depict2 compatible zscore matrix or gene pvalues when using RUN2
# Parameter file is a bashscript containing the paramters voor een run
# If any exit code in this script is not 0, quit
set -e
# Load java
ml Java
echo "[IN... |
c3064ad7d429476569a8cead42991759e522d52050e72fb2685f6deeb852d801 | Shell | 4,178 | 87 | #!/bin/bash
#usage: ./copy_reports_to_minio.sh </path/to/family/results/dir> <NGS type: wgs or wes> <OPTIONAL: multiqc> <OPTIONAL: coverages>
family_dir=$1
NGS_type=$2
multiqc=$3
coverages=$4
mc=/hpf/largeprojects/ccmbio/ccmmarvin_shared/data_transfers/mc
if [ -z $family_dir ]; then
echo 'Must specify resul... |
0c69f3d2f19dde174419493def281e139c51dccdc4c283673c90802b7ab90bfd | Shell | 4,179 | 193 | #!/bin/bash
# Split reads that contain Ns in their CIGAR string with GATK SplitNCigarReads
# script filename
script_path="${BASH_SOURCE[0]}"
script_name=$(basename "$script_path")
segment_name=${script_name/%.sh/}
echo -e "\n ========== SEGMENT: $segment_name ========== \n" >&2
# check for correct number of argume... |
c9e6b8672bd75867682cdf01eae0b223093aa4df1f0c88dfecfda052bb492480 | Shell | 4,185 | 82 | #!/usr/bin/env bash
# Prerequisite checks for install-python-api. Read-only, no sudo, no network
# writes. Exits non-zero only on hard blockers (no usable interpreter, and no
# source at all to install from).
# On-camera banner: every skill run announces itself, so a terminal recording
# shows which skill is doing the ... |
3c46888a79a206034d28efe8a57ff219faf252d4d6eabd5705fd91b3cf77916c | Shell | 4,186 | 141 | #!/bin/bash
# Copyright 2022 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
f96c2f61574377974df8ae4aa0eaf3d55f0d5468f0e1eca796ee29d0c7681167 | Shell | 4,192 | 113 | #!/usr/bin/env bash
# To be run from one directory above this script.
. ./path.sh
text=data/train_fisher/text
lexicon=data/local/dict/lexicon.txt
for f in "$text" "$lexicon"; do
[ ! -f $x ] && echo "$0: No such file $f" && exit 1;
done
# This script takes no arguments. It assumes you have already run
# fisher... |
fde7893a2e09476b5afdc1d11f3343ba9e1f8ada6c7479a96d3bb1a6167b20cb | Shell | 4,200 | 188 | #!/bin/bash
# GATK coverage stats
# script filename
script_path="${BASH_SOURCE[0]}"
script_name=$(basename "$script_path")
segment_name=${script_name/%.sh/}
echo -e "\n ========== SEGMENT: $segment_name ========== \n" >&2
# check for correct number of arguments
if [ ! $# == 3 ] ; then
echo -e "\n $script_name ERR... |
c6de86b828ccb0b15b6337299f4d16203001e86b0da74dd6f1065a2b3ec101ea | Shell | 4,210 | 126 | #!/usr/bin/env bash
. ./cmd.sh
stage=0
train_stage=451
use_gpu=true
rescore=true
set -e
. ./cmd.sh
. ./path.sh
. ./utils/parse_options.sh
# assume use_gpu=true since it would be way too slow otherwise.
if ! cuda-compiled; then
cat <<EOF && exit 1
This script is intended to be used with GPUs but you have not com... |
5655ba0c4942de2cc2d0da92b02ba891fb5994f6d6aa9d30ed587532b6e96a29 | Shell | 4,223 | 51 | #!/bin/bash
#collect individual runs
# ---- preprint ----
# blocked, baseline
python collect_runs.py --gating=None --cuda=False --ctx_scaling=4 --lrate_sgd=0.03 --lrate_hebb=0.009 --centering=False --weight_init=1e-2 --save_dir=baseline_blocked_new_select --verbose=False;
# interleaved, baseline
python collect_runs.... |
0c802c31d7344a7a77d48c781686a50395d6961e8f6ed6c5b871ff1b020009cc | Shell | 4,225 | 122 | #!/usr/bin/env bash
# aug_1a is as 1a but with data augmentation
# accuracy 79.5% (1a had accuracy 69%)
# steps/info/nnet3_dir_info.pl exp/cnn_aug_1a_cifar10
# exp/cnn_aug_1a_cifar10: num-iters=60 nj=1..2 num-params=0.2M dim=96->10 combine=-0.61->-0.58 loglike:train/valid[39,59,final]=(-0.60,-0.49,-0.57/-0.68,-0.60,... |
2b08a2f93dba05deafceaab0b340485ff786464498731f5406768f58d74f21df | Shell | 4,228 | 12 | rsync -vP –rsync-path="mkdir -p /scratch/umcg-ndeklein/apps/data//dbSNP && rsync" /apps/data//dbSNP/dbsnp_138.b37.vcf umcg-ndeklein@peregrine.hpc.rug.nl:/scratch/umcg-ndeklein/apps/data//dbSNP/
rsync -vP –rsync-path="mkdir -p /scratch/umcg-ndeklein/apps/data//ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_24... |
06c480032ca54498ca19a49a8d17d9bedc52c39d18df99fab271b7cd6b27b085 | Shell | 4,230 | 116 | #!/usr/bin/env bash
# Hub-5 Eval 2000 data preparation
# Author: Arnab Ghoshal (Jan 2013)
# To be run from one directory above this script.
# The input is two directory names (possibly the same) containing the
# 2000 Hub5 english evaluation test set and transcripts, which are
# respectively: LDC2002S09 LDC2002T4... |
debd14db5162037da5eb099ba2c58257d1e67692f57fba653109c95fb6529296 | Shell | 4,230 | 146 | #!/usr/bin/env bash
# shellcheck source=../utils.sh
source $( cd -- "$(dirname "$0")" >/dev/null 2>&1 ; pwd -P )/../utils.sh
# Check if there is input
[[ ( $# -eq 0 ) ]] && displayhelp $0 1
# Preparing the default values for variables
anat1sfx=acq-uni_T1w
anat2sfx=none
fs_json=none
std=MNI152_T1_1mm_brain
mmres=2.5
... |
75fa2311ea14a907b32fafd68f9d15d33138548e1b0648125987f27fb3c4bc75 | Shell | 4,234 | 136 | #!/usr/bin/env bash
# Copyright 2015 University of Sheffield (Jon Barker, Ricard Marxer)
# Inria (Emmanuel Vincent)
# Mitsubishi Electric Research Labs (Shinji Watanabe)
# Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0)
# Copyright 2015, Mitsubishi Electric Research Laboratorie... |
e63974afd97c7e5bdf0a89fcfbf93af7e4aa6cca8b132c44d036c36433a45d0c | Shell | 4,264 | 121 | #!/bin/bash -u
. ./cmd.sh
. ./path.sh
# DNN training. This script is based on egs/swbd/s5b/local/run_dnn.sh
# Shinji Watanabe, Karel Vesely,
# Config:
nj=80
stage=0 # resume training with --stage=N
. utils/parse_options.sh || exit 1;
#
if [ $# -ne 1 ]; then
printf "\nUSAGE: %s [opts] <mic condition(ihm|sdm|mdm)>... |
a5606d3c4f8c0806a9c4b958b044fcca7c7d850cec4b4636c4e9433daa270709 | Shell | 4,271 | 121 | #!/bin/bash -u
. ./cmd.sh
. ./path.sh
# DNN training. This script is based on egs/swbd/s5b/local/run_dnn.sh
# Shinji Watanabe, Karel Vesely,
# Config:
nj=80
nj_decode=30
stage=0 # resume training with --stage=N
. utils/parse_options.sh || exit 1;
#
if [ $# -ne 1 ]; then
printf "\nUSAGE: %s [opts] <mic condition(i... |
c6f724dee08d75df2dc36c352728c5cc6421dc5d709b042655953193c0315be2 | Shell | 4,284 | 30 | #!/bin/bash
###
# @Author: your name
# @Date: 2021-02-03 21:00:04
# @LastEditTime: 2021-02-04 11:13:00
# @LastEditors: Please set LastEditors
# @Description: In User Settings Edit
# @FilePath: \LightFieldMicroscopy_ImageJPlugin\build_cuda.sh
###
cd $(dirname $0) & echo cd:$(pwd)
nvcc -gencode=arch=compute_60,cod... |
4927c61031eebeae732970935f13d1b8c20b9abdddd1e3ec9e9b5592c51b017f | Shell | 4,287 | 139 | #!/usr/bin/env bash
# Copyright 2015 University of Sheffield (Jon Barker, Ricard Marxer)
# Inria (Emmanuel Vincent)
# Mitsubishi Electric Research Labs (Shinji Watanabe)
# 2017 JHU CLSP (Szu-Jui Chen)
# Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0)
# Copyright 2015,... |
4a83b1f70b6c747ed071c9cb6c5b3a2a304f80b754c7c586f7caa4bbbd741933 | Shell | 4,296 | 113 | #!/usr/bin/env bash
# Copyright 2012-2014 Brno University of Technology (Author: Karel Vesely)
# Apache 2.0
# This example script trains a DNN on top of fMLLR features.
# The training is done in 3 stages,
#
# 1) RBM pre-training:
# in this unsupervised stage we train stack of RBMs,
# a good starting point fo... |
a4628e8edc14f0ac08dbf7e11a24c2538fde0eb6d1da720d5f90a763a3351176 | Shell | 4,298 | 126 | #!/bin/bash
set -euo pipefail
SCRIPT_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)"
# --- Defaults ---
DISTRO="humble"
RMW="fastdds"
# Holds the value of --ros-domain-id. Named differently from ROS_DOMAIN_ID so it
# does not clobber the inherited environment variable; it defaults to that env
# var so exporting ... |
7b30a308560adc7037d84372d3efc8e42378577a7f7767a752ff99d8b60cf8bc | Shell | 4,307 | 121 | #!/usr/bin/env bash
# Copyright 2019, Johns Hopkins University (Author: Shinji Watanabe)
# Apache 2.0
#
# This script generates synchronized audio data across arrays by considering
# the frame dropping, clock drift etc. done by Prof. Jon Barker at University of
# Sheffield. This script first downloads the synchronizat... |
89da18e02f7542bf060e46999b1804f24bf3ac4979d2788b767335bbf136246a | Shell | 4,311 | 152 | ml Java
ml plink
ml Python/2.7.12-foss-2015b
dsname=$1
dsdir=$2
snpmapref=/groups/umcg-biogen/tmp03/annotation/eqtlgen/GiantSNPMappings_Filtered_on_Maf0.001_Indels.txt.gz
kgbim=/groups/umcg-biogen/tmp03/annotation/1kgp3v5a/ALL-merged.bim
kgpedmap=/groups/umcg-biogen/tmp03/annotation/1kgp3v5a/ALL-merged
vcfutils=/gr... |
6d7261834c9dcac994ce98f0dd0eec826d88a9c2d1e38883594a2b9c44d5c62f | Shell | 4,312 | 107 | #!/usr/bin/env bash
# Copyright 2014 Vimal Manohar, Johns Hopkins University (Author: Jan Trmal)
# Apache 2.0
#Begin configuration section
silence_segment_fraction=1.0 # What fraction of segment we should keep
#end configuration section
# This is not necessarily the top-level run.sh as it is in other directories... |
a6a165a8addac2cd0e365b555979c912e53e029c1424b35ccbe1262dea61a6d4 | Shell | 4,318 | 128 | #!/usr/bin/env bash
# Copyright 2014, University of Edinburgh (Author: Pawel Swietojanski)
# AMI Corpus dev/eval data preparation
. ./path.sh
#check existing directories
if [ $# != 3 ]; then
echo "Usage: ami_sdm_scoring_data_prep.sh <path/to/AMI> <mic-id> <set-name>"
exit 1;
fi
AMI_DIR=$1
MICNUM=$2
SET=$3
DSET=... |
035a39ada6c68003607b3ec746e1c0c7aa5d63eb3a2fad67d4c74a6dd9bb839d | Shell | 4,321 | 110 | #!/usr/bin/env bash
# Fetch the prebuilt CARLA Autoware map pair (pointcloud + lanelet2) from
# carla-simulator/autoware-contents and arrange it in the Autoware layout:
# <out>/pointcloud_map.pcd
# <out>/lanelet2_map.osm
# <out>/map_projector_info.yaml (projector_type: Local)
#
# Prebuilt maps exist for Town01.... |
793008c98b103b905d832a8effc003c245783d751dcd7a1975ad0bc53d33a5b2 | Shell | 4,321 | 151 |
# this script is used for comparing decoding results between systems.
# e.g. local/chain/compare_wer_general.sh tdnn_c_sp tdnn_d_sp
# For use with discriminatively trained systems you specify the epochs after a colon:
# for instance,
# local/chain/compare_wer_general.sh tdnn_d_sp tdnn_d_sp_smbr:1 tdnn_d_sp_smbr:2 ...
... |
d2731d79ba1cb517aaa53b4f3b32f22f4e79c3372342c53d7d7ec4f818c22454 | Shell | 4,325 | 131 | #!/usr/bin/env bash
# Copyright 2015 Tokyo Institute of Technology (Authors: Takafumi Moriya and Takahiro Shinozaki)
# 2015 Mitsubishi Electric Research Laboratories (Author: Shinji Watanabe)
# Apache 2.0
# Acknowledgement This work was supported by JSPS KAKENHI Grant Number 26280055.
# CSJ 291 hours tra... |
40a01eeec3d5dacff74b8dbdfba902d8f295400cf7dbb24d3daf9c6cc0f5f4cb | Shell | 4,330 | 111 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Author: Daniel Povey) 2012. Apache 2.0.
# begin configuration section.
cmd=run.pl
stage=0
min_lmwt=5
max_lmwt=17
iter=final
word_ins_penalty=0.0,0.5,1.0
resolve_ctm_overlaps=false
#end configuration section.
[ -f ./path.sh ] && . ./path.sh
. parse_options.sh ... |
3c00767f6ad8290d4682e74d8e77d782521341cbfa8de8f64619d8740f153225 | Shell | 4,332 | 138 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Authors: Daniel Povey, Sanjeev Khudanpur) 2012-2013. Apache 2.0.
# begin configuration section.
cmd=run.pl
stage=0
cer=0
decode_mbr=true
beam=5
word_ins_penalty=0
min_lmwt=7
max_lmwt=17
model=
#end configuration section.
[ -f ./path.sh ] && . ./path.sh
[ -f .... |
58ed7d312ce5b955e555b67c49d0712471a3d71669104f530df68b33169464f1 | Shell | 4,339 | 92 | #!/usr/bin/env bash
# Make the features, build the iVector extractor
. ./cmd.sh
stage=1
set -e
. ./cmd.sh
. ./path.sh
. ./utils/parse_options.sh
mkdir -p exp/nnet2_online
if [ $stage -le 1 ]; then
# this shows how you can split across multiple file-systems. we'll split the
# MFCC dir across multiple location... |
1b3deb7f519342c67cb733237927f857c6a9156824f24bf191f6e16aa17b2433 | Shell | 4,340 | 138 | #!/usr/bin/env bash
# Copyright Johns Hopkins University (Authors: Daniel Povey, Sanjeev Khudanpur) 2012-2013. Apache 2.0.
# begin configuration section.
cmd=run.pl
stage=0
cer=0
decode_mbr=true
beam=5
word_ins_penalty=0
min_lmwt=7
max_lmwt=17
model=
#end configuration section.
[ -f ./path.sh ] && . ./path.sh
[ -f .... |
17981301842a235e26ff81da9893275ecd30f6e5b940fc49abc6caaea1aa1005 | Shell | 4,346 | 123 | #!/usr/bin/env bash
# Copyright 2014, University of Edinburgh (Author: Pawel Swietojanski)
# AMI Corpus dev/eval data preparation
. ./path.sh
#check existing directories
if [ $# != 3 ]; then
echo "Usage: ami_mdm_scoring_data_prep.sh /path/to/AMI-MDM mic-name set-name"
exit 1;
fi
AMI_DIR=$1
mic=$2
SET=$3
SEGS=d... |
4e60309be562a0cbfaa8ebf3c3ec4387bada30289860616440a3ca7feee1c5d7 | Shell | 4,346 | 197 | #!/bin/bash
##
## RNA-seq differential gene expression using DESeq2
##
# script filename
script_path="${BASH_SOURCE[0]}"
script_name=$(basename "$script_path")
route_name=${script_name/%.sh/}
echo -e "\n ========== ROUTE: $route_name ========== \n" >&2
# check for correct number of arguments
if [ ! $# == 1 ] ; the... |
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