sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
da1c8e816208caa63746abdd86f596564b16989750993549698946784953cfa2 | Shell | 729 | 16 | #!/usr/bin/bash
set -e
# Simple log helper functions
info() { echo -e "\033[1;34m[INFO ][MxStream] $1\033[1;37m" ; }
warn() { echo >&2 -e "\033[1;31m[WARN ][MxStream] $1\033[1;37m" ; }
export LD_LIBRARY_PATH=${MX_SDK_HOME}/lib:${MX_SDK_HOME}/opensource/lib:${MX_SDK_HOME}/opensource/lib64:/usr/local/Ascend/ascend-tool... |
77786fc84469251fcc6266a925c107a398ea8b76299b3ddb97b46884e8ed560f | Shell | 730 | 18 | #!/bin/bash
# Save the scores in `predict_outputs/*.tsv` files as compressed `*.npz`
# NumPy matrices
python scores_as_npz.py ./predict_outputs_1/lt0.05_igap_abs_diffs.tsv \
./IGAP_lt0.05.npz
python scores_as_npz.py ./predict_outputs_1/gt0.50_igap_abs_diffs.tsv \
./IGAP... |
51b702cbf683581ad02ec7e67c0994d661feb7ac03bef0c28ccac49bfadb4955 | Shell | 731 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/001_%A.out
#SBATCH --job-name 001_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module load... |
66fc719d1b7ee025db4249ae78c8b4ce96e16e18c2d727d315cbd2dd7fa5c3e7 | Shell | 731 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/003_%A.out
#SBATCH --job-name 003_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module load... |
65f1cee3c8f726c297b0f172bde0c15c39ac0c8da8b5fe57d9d7a201f49ee890 | Shell | 732 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/weight_decay/001_%A.out
#SBATCH --job-name wt001
#SBATCH --account=rrg-PIID
module load python/3.7
mo... |
50b95778c0d75906ec265abc2710498b7244225ec42b12cd60d1d3a1982a9ebf | Shell | 734 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/0001_%A.out
#SBATCH --job-name 0001_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module lo... |
c394925303f42935760bc0750eed9752d8425572550b262468d9c88197509f34 | Shell | 734 | 13 | #!/bin/bash
echo "Steering"
python metrics.py --root-path /gpfs/space/projects/Bolt/dataset-demo --input-modality nvidia-camera --drive-datasets 2022-06-17-13-21-51_e2e_elva__steering
echo "Steering wide"
python metrics.py --root-path /gpfs/space/projects/Bolt/dataset-demo --input-modality nvidia-camera --drive-datas... |
fb3a4295c5cb62595c9a732403fd23811c9b7ea83a061c719af3a2c70cc31bab | Shell | 734 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/0003_%A.out
#SBATCH --job-name 0003_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module lo... |
dbf28b5edfcdfbadd336e2b57f16e02422b7f76997dd75ce768a9f4d14e16b81 | Shell | 735 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/weight_decay/0001_%A.out
#SBATCH --job-name wt0001
#SBATCH --account=rrg-PIID
module load python/3.7
... |
8593a9e9c44e7276cbcc85374c80a27a952bd22e93274b2e2783f1f1a5f47ac0 | Shell | 737 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/00004_%A.out
#SBATCH --job-name 00004_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module ... |
8da3042c9339381b1e514335c1825f68855fcebcae4258d7155771b262b2130e | Shell | 737 | 31 | #!/usr/bin/env bash
. ./path.sh
set -e
max_segment_duration=30
overlap_duration=5
max_remaining_duration=15
. utils/parse_options.sh
data=$1
if [ ! -s $data/utt2dur ]; then
utils/data/get_utt2dur.sh --nj 4 ${data} 1>&2 || exit 1;
fi
if [ ! -f $data/segments ]; then
utils/data/get_segments_for_data.sh ${data}... |
927d5f0ee02c759613c2eb7ffe698e89e677e5c690571f397789cba403adeb49 | Shell | 737 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/00002_%A.out
#SBATCH --job-name 00002_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module ... |
93a5a131effb3d63e90ef976357cd49ec3ac0c71ef7cd7b82aa1864027e1fc9e | Shell | 737 | 37 | #!/bin/bash
#$ -l h_rt=5:00:00,h_data=32G
#$ -cwd -V
#$ -j y
#$ -o poststar$JOB_ID.out
#$ -M videlock@mail
#$ -m bea
. /u/local/Modules/default/init/modules.sh
module load STAR/2.7.0e
samples=$(cat samps)
nthreads=8
mkdir -p readcounts
mkdir -p bamfiles
cp starout/*ReadsPerGene.out.tab readcounts
cp starout/*Align... |
f48c87956d51b6024e6c92c20241f02846d0f9263aeb160bb9f921020c9ea2c2 | Shell | 737 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/00003_%A.out
#SBATCH --job-name 00003_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module ... |
f8c14173b57941184346a027f00d6f048d590049c5157178b6626ae89827296d | Shell | 737 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/00001_%A.out
#SBATCH --job-name 00001_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module ... |
f901804ac11521f226f7029adf0947f25b3bc204c71f71a96a5836c77bb9e2c4 | Shell | 737 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/00005_%A.out
#SBATCH --job-name 00005_lr
#SBATCH --account=rrg-PIID
module load python/3.7
module ... |
d1713f32ad66d343cb23c9039f7725856b9ce03cd6c91f49486407058bbc73e9 | Shell | 738 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/weight_decay/00001_%A.out
#SBATCH --job-name wt00001
#SBATCH --account=rrg-PIID
module load python/3.... |
f2d2b078b23d50e2bc6bf2979d1e940ccec2baf6c01b4c51dcca84a251968673 | Shell | 739 | 17 | #!/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 ... |
1a4ea5fc8fd27df4cb6b8caa8252c664feab5bd55f707a88aea050c4f39840ee | Shell | 740 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/000005_%A.out
#SBATCH --job-name 000005_lr
#SBATCH --account=rrg-PIID
module load python/3.7
modul... |
3d3019149d855add621b830d34dbb88c7bc8bc8efdb1b565390e1c42a6c03552 | Shell | 740 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/000009_%A.out
#SBATCH --job-name 000009_lr
#SBATCH --account=rrg-PIID
module load python/3.7
modul... |
a5d2813a67b299de8565df3ae1542fa7a9f77ff8109cda66f80d5886bd905014 | Shell | 740 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/000007_%A.out
#SBATCH --job-name 000007_lr
#SBATCH --account=rrg-PIID
module load python/3.7
modul... |
be218db6f6593863941a9a06eafa4cefbe0c930324d9c9b115cdc75f385e5b0a | Shell | 740 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/000008_%A.out
#SBATCH --job-name 000008_lr
#SBATCH --account=rrg-PIID
module load python/3.7
modul... |
e9a49bbee0e96a98cef44af36071a659fd030cfbf05dcdf0528f8bc09f6dc400 | Shell | 740 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/000006_%A.out
#SBATCH --job-name 000006_lr
#SBATCH --account=rrg-PIID
module load python/3.7
modul... |
0572b0e8ec5b7883438fa957885f9dd6e31471d7e4f0bad5e5809bb758137d08 | Shell | 741 | 18 | #!/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 ... |
08078cfda419a1a65bc7986c763c012d1b95c349bf94072ab46217b6b0d3fe2c | Shell | 741 | 43 | #!/bin/bash
data=$1
url=$2
part=$3
if [ $# -ne 3 ];then
echo "Usage: $0 <data-base> <url-base> <corpus-part>"
echo "e.g.: $0 data/aishell www.openslr.org/33 data_aishell"
fi
if [ ! -d "$data" ]; then
mkdir -p $data
fi
if [ -z "$url" ]; then
echo "$0: empty URL base."
exit 1;
fi
full_url=$url
echo "$full_url"
... |
c7ade22efa58780ad1ef89647a38f633657415726a842626f751fd2084f21ec9 | Shell | 743 | 25 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/shortcut/log/MRNet/lr/0000095_%A.out
#SBATCH --job-name 0000095_lr
#SBATCH --account=rrg-PIID
module load python/3.7
mod... |
d12ab5eae28666dee31f26cc38f3a3f27bb209b7248cbf775baaa7933b0bff6e | Shell | 745 | 27 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --account=rrg-PIID
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/brats_rerun/%x_%N_%j.out
#SBATCH --error=/scratch/authorid/brats_rerun/%x_%N_%j.err
#SBATCH -... |
fcb7855a07238f1c2f53f54acb7e98d9fbe311e5fff78dcf9ffa79fda0d6ab74 | Shell | 745 | 13 | ## From https://zenodo.org/record/4333872#.YbEwJS-B2gQ
## D11, D30, D52, combined sampled
wget --content-disposition https://zenodo.org/record/4333872/files/D11.h5?download=1
wget --content-disposition https://zenodo.org/record/4333872/files/D30.h5?download=1
wget --content-disposition https://zenodo.org/record/433387... |
de76615265569b189117deb13839de74e23587186980146a84e7cb1a3719dcb5 | Shell | 748 | 24 | #!/usr/bin/env bash
# This is neural net training on top of adapted 40-dimensional features.
#
. ./cmd.sh
(
steps/nnet2/train_tanh.sh \
--mix-up 8000 \
--initial-learning-rate 0.01 --final-learning-rate 0.001 \
--num-hidden-layers 4 --hidden-layer-dim 1024 \
--cmd "$decode_cmd" \
data/train_si284 ... |
219669e9ececaee03c7438e3df7c41999c20decd8d6a1e9a2118ae4db9fcfbc4 | Shell | 749 | 27 | #! /bin/bash
# Copyright 2016 Johns Hopkins University (Author: Matthew Wiesner)
# Apache 2.0
encoding="utf_8"
. ./utils/parse_options.sh
command -v morfessor-train >/dev/null 2>&1 || { echo >&2 "Morfessor seems to either not be installed or not on path."; exit 1; }
if [ $# -ne 2 ]; then
echo >&2 "Usage: ./local... |
06686844ecdaf27634b9369b918832163ddd272af90228d47ee5a88ce3ff3423 | Shell | 754 | 27 | #!/usr/bin/env bash
# Copyright 2015 University of Sheffield (Author: Ning Ma)
# Apache 2.0.
#
# Scripts for preparing grammar for the GRID corpus (or CHiME 1)
echo "Preparing grammar for test"
. ./config.sh # Needed for REC_ROOT and WAV_ROOT
# Setup relevant folders
lang="$REC_ROOT/data/lang"
utils="utils"
# Cre... |
d6b29b4b769fd73abe438326e39982fd1af61af0c12ca85049ed7a8f63e72681 | Shell | 754 | 31 | #!/usr/bin/env bash
# Copyright 2014 Gaurav Kumar. Apache 2.0
data_dir=data
train_all=data/callhome_train_all
if [ $# -lt 1 ]; then
echo "Specify the location of the split files"
exit 1;
fi
splitFile=$1
# Train first
for split in train dev test
do
dirName=callhome_$split
cp -r $train_all $data_dir/$... |
9628b18cfc5049a0283040c2535f14afd276bbab1d1a552f29c4e00c51c640ca | Shell | 758 | 36 |
#!/bin/bash
# script that pull image with the tag from parameters to remote docker repository
# Set default values for parameters
tag=prod
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-t|--tag)
tag="$2"
shift # past argument
shift # past value
;... |
764564e5c27f04ee68b74a8c70c699c3444fb53f68410b1f4381151209fe9a64 | Shell | 768 | 37 | #!/bin/bash
# script credit: https://github.com/naumenko-sa/bioscripts
# reports the distribution of lowest coverage in exons
# each exon is characterized by a bp with the lowest coverage
# distribution of theses values for
# input is dcoverage
echo "target,gene,min_coverage"
cat $1 | awk -F "\t" '{print $1"-"$2"-"... |
3987d7967e09963bd548480fb20af3d1a1959d43dc77bd572a322bdb9d150ca3 | Shell | 771 | 16 | #!/bin/bash
# --max_epochs = [50, 60, 80, 100]
# --lr = [5e-4, 1e-4, 1e-3, 5e-3]
# --batch_size = [4, 5, 6, 8]
# --weight_decay = [5e-5, 1e-5, 5e-4, 1e-4]
# --random_seed = [-1, 0, 1, 42, 100] # if random_seed=-1, random_seed is unfixed
# --data_name = [CT100, P9, P20, P1110]
CUDA_VISIBLE_DEVICES=0 python train.py --m... |
fb881df525abff44a7f2a2263785b363d39d2c8a8c9f191fa32de9caf521eb8b | Shell | 772 | 12 |
# Move gene_relevance_input data
scp yonchoi@esb.genomecenter.ucdavis.edu:~/.ssh/id_rsa_farm ~/.ssh/
scp yonchoi@esb.genomecenter.ucdavis.edu:~/.ssh/id_rsa_farm.pub ~/.ssh/
mkdir /home/yongin/projcets/siVAE/Experiments/FetalLiverExperiment/out/data/siVAE
scp /home/yongin/projects/pypi/siVAE/Experiments/FetalLiverEx... |
a8f3cdf4e942ba6bccc7435bfae96a893b81fca0cb06da9740bb3b8fb7b4d2e2 | Shell | 774 | 35 | #ml VCFtools
#ml HTSlib
vcfin=$1
bedloc=$2
chr=$3
vcfout=$4
# convert VCF to bed
java -Xmx9g -jar /groups/umcg-biogen/tmp03/tools/VCFUtils.jar --vcftobed -i $vcfin -o $bedloc
# lift over
/groups/umcg-biogen/tmp03/tools/liftover/liftOver \
$bedloc \
/groups/umcg-biogen/tmp03/tools/liftover/hg38ToHg19... |
7135f0ce609e34f91a1e5999ce0f59f1b033d8ef61b52abdf036ec44769f61d6 | Shell | 775 | 36 |
#!/bin/bash
# script that pull image with the tag from parameters to remote docker repository
# Set default values for parameters
tag=prod
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-t|--tag)
tag="$2"
shift # past argument
shift # past value
;... |
b8203474c349906ecfb336cb43102d8865a53ee0d606f84993c97bfba295e884 | Shell | 780 | 17 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
d170b3cb55793d2822fc554df6f155da1a21c305f6ee31b5ef5565920ceb647d | Shell | 780 | 17 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
56f06780c180d6ec7540d7832950d7f79823063da80e04e39cabae0adac29274 | Shell | 782 | 33 | # ffmpeg required.
# this script resamples all wav files in same/sub directory into sample rate 22050Hz, and then removes the original.
# copy this to root directory of data and ./resample_delete.sh (you may need to chmod a+x.)
# https://unix.stackexchange.com/questions/103920/parallelize-a-bash-for-loop
open_sem(){
... |
8e86d4d37d618a5ed553f16f12af0e62a21a138de693be05b4bdf2f5cfbe0f57 | Shell | 783 | 27 | #!/bin/bash
#SBATCH --partition=long
#SBATCH --time=099:00:00
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=16
#SBATCH --mem-per-cpu=8G
#SBATCH --job-name=SCM
#SBATCH --array=1-480:16
module load MATLAB/R2019b
# create temporary directory and set it as MCR_CACHE_ROOT
export MCR_CACHE_ROOT=$(mktemp -d)
# SCM_wrapper(fp... |
6c3083367e0b8539f33317d123d9d20a8769c6f55813edc2394b7afc9dd6dec1 | Shell | 784 | 18 | #!/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 ... |
aeb4e05c5d26f181deae6fdbc651cb272a5f2e6affdf0657c69d06ec9362fdf3 | Shell | 787 | 20 | #!/usr/bin/env bash
# Copyright 2020 The TensorFlow Authors. All Rights Reserved.
#
# 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... |
3cf61c9650bba54d3075b52f059396c61c0cd85b6ff17781f1cba1daf833a17f | Shell | 788 | 17 | #!/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 ... |
b28cc64cba2cb19efc399eee654725ab844ba55ad0e4624b3da01ec64ccc7bec | Shell | 789 | 18 | #!/bin/bash
#SBATCH --job-name=MATRIX_PREPARATION_EUR
#SBATCH --output=/groups/umcg-biogen/tmp01/output/2019-11-06-FreezeTwoDotOne/2020-10-12-deconvolution/deconvolution/matrix_preparation/jobs/MATRIX_PREPARATION_EUR.out
#SBATCH --error=/groups/umcg-biogen/tmp01/output/2019-11-06-FreezeTwoDotOne/2020-10-12-deconvolutio... |
9c9a5deb77adfe8ea4b75f5db49640af84bbbfee9741a9c4acbaa72977019b52 | Shell | 790 | 29 | #!/bin/bash
#SBATCH --time=01:00:00
#SBATCH --mem=4G
#SBATCH --output=oargtv_%A_%a.out
#SBATCH --array=0-34
# first check that the venv is active
source external/deface/bin/activate
currenv=$(echo $VIRTUAL_ENV|awk -F "/" '{print $NF}');
if [ $currenv != "deface" ]; then
echo "Your active environment is not =defa... |
1463f93d39cfeb89cd5b672b7823acb77441f36c2e581f1bc3412527be20631c | Shell | 794 | 22 | #!/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 ... |
8ae0db41b5bd41c3ed0384a8e8a765fa092f1e8755408d453b14a2c3353b9e55 | Shell | 794 | 32 | #!/usr/bin/env bash
# Copyright 2020 Jiawen Kang
# Apache 2.0.
#
# This script prepares the CN-Celeb2 dataset.
if [ $# != 2 ]; then
echo "Usage: make_cnceleb2.sh <CN-Celeb2_PATH> <out_dir>"
echo "E.g.: make_cnceleb2.sh /export/corpora/CN-Celeb2 data"
exit 1
fi
in_dir=$1
out_dir=$2
# Prepare the cncele... |
ff257512f0b8263c41b8ecb575e9be9d621a677d66311f3640b4981f74e58c44 | Shell | 794 | 29 | #!/usr/bin/env bash
# Copyright 2014 Gaurav Kumar. Apache 2.0
oracle_dir=exp/tri5a/decode_callhome_test/oracle
split=callhome_test
data_dir=data/callhome_test
lang_dir=data/lang
# Make sure that your STM and CTM files are in UTF-8 encoding
# Any other encoding will cause this script to fail/misbehave
if [ ! -e $o... |
a371eaa0339aa9b80750a25f791031c55c6aed6ed7e3efb38df1a6a583708c64 | Shell | 795 | 30 | #!/bin/bash
ml Python/2.7.12-foss-2015b
ml Java
input=$1
chainfile=/groups/umcg-biogen/tmp03/tools/liftover/hg38ToHg19.over.chain.gz
geneannotation=/groups/umcg-biogen/tmp03/annotation/Homo_sapiens.GRCh37.71-genes.txt.gz
dbsnp=/groups/umcg-biogen/tmp03/annotation/dbsnp/b37/All_20180423.vcf.gz
python /groups/umcg-biog... |
5622e2bd716707d658bd6de63537bda8df63fa69b3099af69548d8c7ba9b71d8 | Shell | 797 | 31 | #!/bin/bash
#$ -l h_rt=5:00:00,h_data=32G,exclusive
#$ -cwd -V
#$ -t 1-7
#$ -j y
#$ -o star$JOB_ID.out
#$ -M videlock@mail
#$ -m bea
samples=$(cat samps${SGE_TASK_ID})
nthreads=8
mkdir -p starout
. /u/local/Modules/default/init/modules.sh
module load STAR/2.7.0e
for i in ${samples}; do
STAR --runThreadN ${nthrea... |
eb3a81e9a2585ca6c8e2e76ce7a495faba90ce015b868b1fc1c903977b50124d | Shell | 798 | 35 | #!/bin/bash
module load fsl
source $FSLDIR/etc/fslconf/fsl.sh
function run_fsl_deface() {
# do some validation of the input folder
#create output for standard
stdfolder=$1"/std"
echo mkdir -p $stdfolder
mkdir -p $stdfolder
# create output folder
outfolder=$1"/fsl_deface"
echo mkdir -p $outfolder
mkdir -... |
877da413dc2c420a69bdd56f9b07f4cfd83f5c228419f001560998f168bd8b3b | Shell | 799 | 36 |
#!/bin/bash
# download files from simulation from s3
# Set default values for parameters
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-u|--uri)
experimentS3URI="$2"
shift # past argument
shift # past value
;;
-h|--help)
echo "Usage: ... |
85f549955de4b0bd61972ddf190cf50630810512a591f68397a1b8996a48287e | Shell | 801 | 36 |
#!/bin/bash
# download files from simulation from s3
# Set default values for parameters
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-u|--uri)
experimentS3URI="$2"
shift # past argument
shift # past value
;;
-h|--help)
echo "Usage: ... |
e69901162f8fe9f36ea211a90da80448127dc33d60f5621b1562a2f805e48299 | Shell | 804 | 25 | #!/usr/bin/env bash
# Copyright 2022 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applic... |
bbacf0f456461d4ba39d47c8b8d486cfc0a7278d3090c763454f4e1f0a77b31e | Shell | 808 | 27 | #!/bin/bash
#SBATCH --partition=medium
#SBATCH --time=024:00:00
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=16
#SBATCH --job-name=KM
#SBATCH --array=1-16:16
module load MATLAB/R2019b
# create temporary directory and set it as MCR_CACHE_ROOT
export MCR_CACHE_ROOT=$(mktemp -d)
# KM_wrapper(fpath,k,delta_f_0,xi,a_max,n... |
0035bfe96a8b7d97bbc33eddf99fd8dc883088517924f764ac6a85d2b327463f | Shell | 809 | 32 | #!/usr/bin/env bash
# Gets lattice oracles
# Copyright 2014 Gaurav Kumar. Apache 2.0
if [ $# -lt 3 ]; then
echo "Specify lattice dir, symbol table and text file for partition"
exit 1;
fi
latticeDir=$1
textFile=$3
symTable=$2
oracleDir=$latticeDir/oracle
echo $latticeDir
echo $oracleDir
. ./path.sh
if [... |
b37cb509592abe2873ddce744b48eb423508fb3fd6fe90380bfadfd0fbb8e069 | Shell | 809 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=100:00:00
#! change ... |
cd469fdf7b379a416dbec7dc7b6f685296115debfddacbb26a508a9fe187c8e7 | Shell | 809 | 56 | #!/usr/bin/env bash
# Copyright 2017 John Morgan
# Apache 2.0.
dir=$1
tmpdir=data/local/tmp/heroico
mkdir -p $tmpdir
# heroico
find \
"$dir/speech/heroico" \
-type f \
-name "*.wav" \
| \
sort \
> \
data/local/tmp/heroico/wav_list.txt
# USMA nonnative
if [ ! -d data/local/tmp/usma/nonnative ... |
d1d44e79c7e01f3e7bb1628614e8dfd21904f0b4c88cc3d82b8483c881acd92d | Shell | 809 | 21 | #!/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 ... |
6c659eba3a02ab7a0374dde7d1298ec61c3381a4ef3fc3ce54767f5719651ff6 | Shell | 810 | 22 | #!/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 ... |
e327a953e670b41b17430ca4e91035d6912d7559afb7b66d7859e29034687861 | Shell | 810 | 19 | #!/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 ... |
e6ede8aaa0597028361ff8593614cc1d433e3d29a7e9982bef4fac251d65a5fe | Shell | 810 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=10:00:00
#! change ... |
fb49054f1f16b3ce45f253bb66162f1361ba3c4b1abaeee728360c1a572fa12d | Shell | 810 | 13 | # you can change cmd.sh depending on what type of queue you are using.
# If you have no queueing system and want to run on a local machine, you
# can change all instances 'queue.pl' to run.pl (but be careful and run
# commands one by one: most recipes will exhaust the memory on your
# machine). queue.pl works with Gri... |
376bd92cc8b13d850faa177a20da29fc7a09051b263442972711f7d6af02a160 | Shell | 811 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=100:00:00
#! change ... |
37bf778bacdf43e3f0dbb02979ada5acca3efc291e6bb992d813af0300fa01b2 | Shell | 812 | 30 | #!/usr/bin/env bash
echo "$0 $@" # Print the command line for logging
[ -f ./path.sh ] && . ./path.sh; # source the path.
. parse_options.sh || exit 1;
transcriptions=$1
input_lexicon_file=$2
output_lexicon_file=$3
(
#find $dev_data_dir/transcription/ -name "*.txt" | xargs egrep -vx '\[[0-9.]+\]' |cut -f 2- -d ... |
907f2aa29e1c8c225b807d4bfd1c1bf2665dadfb8b526c65688a95428276e929 | Shell | 812 | 13 | # you can change cmd.sh depending on what type of queue you are using.
# If you have no queueing system and want to run on a local machine, you
# can change all instances 'queue.pl' to run.pl (but be careful and run
# commands one by one: most recipes will exhaust the memory on your
# machine). queue.pl works with Gri... |
47b3240e99b8859286fd97ee1a35d87acdc29219f5414c53b13eaf80b832afe9 | Shell | 813 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=100:00:00
#! change ... |
c8afcd100469ad832cfeebe635e1bd4c2be2c58cd0291d82739fc45e19b88f57 | Shell | 816 | 27 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --account=rrg-PIID
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/brats_rerun/%x_%N_%j.out
#SBATCH --error=/scratch/authorid/brats_rerun/%x_%N_%j.err
#SBATCH -... |
d021a5b95b0e90dcd47ce633668373eefc237e8d193a2091f1ace3bf8118d148 | Shell | 816 | 27 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --account=rrg-PIID
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/brats_rerun/%x_%N_%j.out
#SBATCH --error=/scratch/authorid/brats_rerun/%x_%N_%j.err
#SBATCH -... |
0c73a56e8a6b8d523fc3a923fa2a179d433cadc501f5ef8020b8f128faf5dec3 | Shell | 817 | 24 | #!/bin/bash
DATADIR=/Users/frederic/Dropbox_PHC/MR_data/gradertest
MYIPADDRESS=`ifconfig en0 | grep 'inet ' | awk '{print $2}'`
VERSION=latest
# allow network connections in Xquartz Security settings
xhost +
# Allow your local user access via xhost: xhost +SI:localuser:picachooser and create a similar user with doc... |
462c486a0d799d0af769878a77de8a4ed1d6647f817e6b973bffdba92f0b2436 | Shell | 817 | 27 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --account=rrg-PIID
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/brats_rerun/%x_%N_%j.out
#SBATCH --error=/scratch/authorid/brats_rerun/%x_%N_%j.err
#SBATCH -... |
5ca9461dec2a7b0a7425ecc85192e26a94e3dfed19fe14f5ac0032ade7cd05d6 | Shell | 817 | 27 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=5-07:00:00
#SBATCH --account=rrg-PIID
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/scratch/authorid/brats_rerun/%x_%N_%j.out
#SBATCH --error=/scratch/authorid/brats_rerun/%x_%N_%j.err
#SBATCH -... |
8b0b7357988c792fe549d533516fa76549d19e883551553a01a39e25713ad320 | Shell | 817 | 30 | #!/usr/bin/env bash
echo "$0 $@" # Print the command line for logging
[ -f ./path.sh ] && . ./path.sh; # source the path.
. parse_options.sh || exit 1;
transcriptions=$1
input_lexicon_file=$2
output_lexicon_file=$3
(
#find $dev_data_dir/transcription/ -name "*.txt" | xargs egrep -vx '\[[0-9.]+\]' |cut -f 2- -d ... |
b290033d6008edfb14be5d9bfade941c9ec1e0fccd5431d067d85478fb925fcd | Shell | 817 | 24 | #!/usr/bin/env bash
# Downlaods Api.ai chain model into exp/api.ai-model/ (will replace one if exists)
DOWNLOAD_URL="https://github.com/api-ai/api-ai-english-asr-model/releases/download/1.0/api.ai-kaldi-asr-model.zip"
echo "Downloading model"
wget -N $DOWNLOAD_URL || ( echo "Unable to download model: $DOWNLOAD_URL" &... |
202b98201418c4459f50ccecf053dae5ea2f6e3e403ee4863c622c701221d01a | Shell | 818 | 30 | #!/usr/bin/env bash
echo "$0 $@" # Print the command line for logging
[ -f ./path.sh ] && . ./path.sh; # source the path.
. parse_options.sh || exit 1;
transcriptions=$1
input_lexicon_file=$2
output_lexicon_file=$3
(
#find $dev_data_dir/transcription/ -name "*.txt" | xargs egrep -vx '\[[0-9.]+\]' |cut -f 2- -d ... |
2d6c72bc2f11d2502cc7e429c2217976def64a5a713010aa3919723a5b2fbed7 | Shell | 818 | 13 | # you can change cmd.sh depending on what type of queue you are using.
# If you have no queueing system and want to run on a local machine, you
# can change all instances 'queue.pl' to run.pl (but be careful and run
# commands one by one: most recipes will exhaust the memory on your
# machine). queue.pl works with Gri... |
2a370132f06e193bc016862bcc41e003b6c58a3c40f4ddf15006ac51586a01fd | Shell | 820 | 15 | # you can change cmd.sh depending on what type of queue you are using.
# If you have no queueing system and want to run on a local machine, you
# can change all instances 'queue.pl' to run.pl (but be careful and run
# commands one by one: most recipes will exhaust the memory on your
# machine). queue.pl works with Gri... |
421571cb2b998122be2ca83d390e17ddb9a5817dedf22a14b7214cd064882679 | Shell | 820 | 36 | #!/bin/bash
manifest_path=$1
target_dir=$2
verify_md5="${3:-true}"
mkdir -p $target_dir
if [[ ! -e $manifest_path ]]; then
url=$manifest_path
manifest_path="$target_dir/manifest.txt"
echo "Saving $manifest_path"
curl -skL $url -o $manifest_path
fi
while read -r file md5 url ; do
filepath=$target... |
ef7cddbfdc001a22fd32d889b008b17b14fab2575f19907b34671463ed50f31c | Shell | 820 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=100:00:00
#! change... |
1151eb0f4e10e4e1171a8236c1ae9c8a0a7990bbda610055c8db90c9b3e76863 | Shell | 821 | 35 |
# Set default values for parameters
container=`docker ps -l -q --filter name=nsp_genesis`
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-c|--container)
container="$2"
shift # past argument
shift # past value
;;
-h|--help)
echo "Usage: ./... |
b93fd5fb6c7018824af0f421610b8fe747f49f1f9aa429c1f9b9e681d47d899b | Shell | 822 | 21 | #!/bin/bash
TRAVIS_PYTHON_VERSION=$1
if [[ "$TRAVIS_PYTHON_VERSION" == "py27" ]]; then export PY_VERSION="python2"; fi
if [[ "$TRAVIS_PYTHON_VERSION" == "py35" ]]; then export PY_VERSION="python3"; fi
brew update
brew outdated cmake || brew upgrade cmake
brew outdated $PY_VERSION || brew upgrade $PY_VERSION
if [[ "... |
0191d404004f2423455e1b177aaacf6a95c828468c144097620ad9f51fe0e903 | Shell | 823 | 29 | #!/bin/bash
#SBATCH --gres=gpu:1
#SBATCH --mem=128G
#SBATCH --cpus-per-task=8
#SBATCH --time=3-24:00:00
#SBATCH --mail-user=email@email.com
#SBATCH --mail-type=ALL
#SBATCH --output=/project/labname-lab/authorid/brats_rerun/%x_%j_%N.out
#SBATCH --job-name s43-Train
#SBATCH --partition=long
newgrp cs-labname
module lo... |
aaffe6a090ec33cecfd75c88058d77890e737e889b8cee126a405295ef47d425 | Shell | 826 | 34 | #!/usr/bin/env bash
# Copyright (c) 2015, Johns Hopkins University ( Yenda Trmal <jtrmal@gmail.com> )
# License: Apache 2.0
# Begin configuration section.
cmd=run.pl
unk="<unk>"
# End configuration section
. ./utils/parse_options.sh
set -e -o pipefail
set -o nounset # Treat unset variable... |
cef055e620cd0eae7a767f069a52999ee5d3a8b1b5ab6199ec4dad9337f2704a | Shell | 826 | 35 | #!/bin/bash
workdir=regulation/scripts/MPRA/region_activity_calc
slurm=$workdir/slurms
mkdir -p $slurm
mkdir -p regulation/data/MPRA/output/positional_activity
mkdir -p regulation/data/MPRA/output/summarized_activity
declare -a arr=("intron" "upstream3" "upstream2" "upstream1" "exon2" "downstream" "exon1")
## no... |
8f323aa7b62e1dc12894a604c99717bb986d631672961eaf6a1c6eeed617c99b | Shell | 829 | 23 | #!/bin/bash
#! Sample PBS submission script for a MATLAB job
#! Requesting resource (processors and wall-clock time):
#! nodes=1:ppn=1 indicates a single processor.
#! nodes=1:ppn=16 would request a whole node for BCp3.
#! 02:30:00 indicates 02 hours and 30 minutes
#PBS -l nodes=1:ppn=16,walltime=100:00:00
#! change... |
f664d53338a1eb49aaeb112a4b1a20216c2bef6d0154fc6260c894b84faf7d4d | Shell | 829 | 32 | #!/usr/bin/env bash
# Copyright 2014 QCRI (author: Ahmed Ali)
# Apache 2.0
# run this from ../
dir=data/local/dict
mkdir -p $dir
# (1) Get QCRI dictionary
wget http://alt.qcri.org//resources/speech/dictionary/ar-ar_lexicon_2014-03-17.txt.bz2 || exit 1;
bzcat ar-ar_lexicon_2014-03-17.txt.bz2 | sed '1,3d' > $dir/... |
f7c4ea03cf656c185326c6f36822848277da1ea9d10df0e0bffed6907ff3e58e | Shell | 829 | 15 | # you can change cmd.sh depending on what type of queue you are using.
# If you have no queueing system and want to run on a local machine, you
# can change all instances 'queue.pl' to run.pl (but be careful and run
# commands one by one: most recipes will exhaust the memory on your
# machine). queue.pl works with Gri... |
b1f6999f2d189fb3983ae04aecfd876708a8aadb009c3b276bd3e2c6e17ba5d4 | Shell | 833 | 21 | # "queue.pl" uses qsub. The options to it are
# options to qsub. If you have GridEngine installed,
# change this to a queue you have access to.
# Otherwise, use "run.pl", which will run jobs locally
# (make sure your --num-jobs options are no more than
# the number of cpus on your machine.
# At BUT use:
export train... |
be6362e0d30efa0a3e00930c2c5de8ce806d3dec2212e97c6e79b4588ca8a2c3 | Shell | 833 | 25 | #!/bin/bash
# Installs pb_chime5
# miniconda should be installed in $HOME/miniconda3/
miniconda_dir=$HOME/miniconda3/
if [ ! -d $miniconda_dir ]; then
echo "$miniconda_dir does not exist. Please run 'tools/extras/install_miniconda.sh" && exit 1;
fi
git clone https://github.com/sas91/pb_chime5.git
cd pb_chime5
... |
0dcc6af6cda28965d3f4e9199d0402ca1b1759b3de88f9061733cfa9f07428b2 | Shell | 834 | 6 | FASTQ1_1=/srv/gsfs0/scratch/leepc12/data/DREAM_challenge_hidden/CHIPseq.ATF2.MCF-7.EXPID_ENCSR881UOO.BSID_ENCBS866ZXX.BSREP1.TECHREP1.FILEIDENCFF164ZYB.R1.fastq.gz
FASTQ1_2=/srv/gsfs0/scratch/leepc12/data/DREAM_challenge_hidden/CHIPseq.ATF2.MCF-7.EXPID_ENCSR881UOO.BSID_ENCBS866ZXX.BSREP1.TECHREP1.FILEIDENCFF431EXX.R2.f... |
25db8c60c75620400ffd4880a2fb8e91a8888a7ffb7bfca35daf33b7a3d60a26 | Shell | 834 | 36 | #!/bin/bash
# show list of mod from s3
# Set default values for parameters
container=`docker ps -l -q --filter name=nsp_genesis`
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-c|--container)
container="$2"
shift # past argument
shift # past value
... |
dc80fd2e783d9930c8e05dd0201bd563f83414bca73d83cdf9ec94a3cfed225d | Shell | 836 | 41 | #!/bin/bash -u
# Copyright 2017 John Morgan
# Apache 2.0.
set -o errexit
[ -f ./path.sh ] && . ./path.sh
if [ ! -d data/local/dict ]; then
mkdir -p data/local/dict
fi
export LC_ALL=C
cut -f2- ./santiago.txt | \
tr -s '[:space:]' '[\n*]' | \
grep -v SPN | sort -u >data/local/dict/nonsilence_phones.txt
... |
9a055307be6e4f4b9940654bb87292be9764fa1578f7b557321d89996d0ef373 | Shell | 840 | 28 | #!/bin/bash
workdir=protein/other_protein_alignments/PAML/PAML_out_branch_model
alns=protein/fastas/prank_output
declare -a arr=("1")
prot=TRNP1
mkdir -p $workdir/$prot
for i in "${arr[@]}"
do
mkdir -p $workdir/$prot/$i
echo "seqfile = $alns/prank_"$prot"_coding_30species_forCoevol_longer.best.nuc.phy" > $wor... |
7b76fd637e70e776c4f85fea4545be3e971e1743eb873c75d21bea663bc4a332 | Shell | 841 | 35 |
#!/bin/bash
# download files from simulation from s3
filePath='../../nsp-queues/remoteNspQueue.nsp'
# Set default values for parameters
# Process command line arguments
while [[ $# -gt 0 ]]
do
key="$1"
case $key in
-f|--file)
filePath="$2"
shift # past argument
shift # past value
... |
b5a915cfdd6932a88761625f8e7ea4d91052a29feeb27de572d9dd410b3abd82 | Shell | 841 | 21 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
451da2ba76710ed6738d925a63870ca44fb1f8833514e2ed228c148b13b141c7 | Shell | 842 | 20 | #!/bin/bash
# Copyright 2021 Huawei Technologies Co., Ltd
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law ... |
ad708914230759cedde63ce125673a8aef8e69d92f86b7a8886c010e92478fcb | Shell | 842 | 29 | #!/bin/bash
#SBATCH --time=01:00:00
#SBATCH --mem=4G
#SBATCH --output=job2_%A_%a.out
#SBATCH --array=0-36
# first check that the venv is active
source external/deface/bin/activate
currenv=$(echo $VIRTUAL_ENV|awk -F "/" '{print $NF}');
if [ $currenv != "deface" ]; then
echo "Your active environment is not =deface... |
26762e825da5732dee73ae9969c1e406a5432029cfd84cc4b4f573fe9f57772c | Shell | 843 | 24 | #!/usr/bin/env bash
# Copyright 2014 Gaurav Kumar. Apache 2.0
. ./cmd.sh
for iter in 1 2 3 4; do
steps/decode_sgmm2_rescore.sh --cmd "$decode_cmd" --iter $iter \
--transform-dir exp/tri5a/decode_test data/lang data/test exp/sgmm2x_6a/decode_test_fmllr \
exp/sgmm2x_6a_mmi_b0.2/decode_test_fmllr_it... |
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