Datasets:
OpenScientificCodeRegistry
/
Database

Dataset card Data Studio Files
xet
 Community
1
sha256
stringlengths
64
64
language
stringclasses
28 values
size
int32
1
491k
lines
int32
1
23.2k
content
stringlengths
1
200k
47cb40770c1f6602ff939e7d0e8b07808700001338ea55a3607a66108e2d5ba5
Shell
1,466
64
##!/bin/bash if [ -z $7 ] then echo "$0 <min_mapping_threshold> <back_distance> <tt> <read len> <pe bam> <sr bam> <e>" exit fi MIN_MAP_T=$1 BACK=$2 TT=$3 READ_LENGTH=$4 PE_BAM=$5 SR_BAM=$6 E=$7 Z=4 WEIGHT=4 OUT_DIR=`dirname $PE_BAM` OUT_FILE=`basename $PE_BAM .bam` MEAN_STDEV=`samtools view $PE_BAM \ | ../scr...
bc25544a41cef60749b375725214f2e9538ae6f33615042d4dce01e48275e029
Shell
1,468
51
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # Download zip, tar, or tar.gz file from google drive # shellcheck disable=SC1091 . ./path.sh || eixit 1 share_url=$1 download_dir=${2:-"downloads"} file_ext=${3:-"zip"} if [ "$1" = "--help" ] || [ $# -lt 1 ] || [ $# -...
ab40761b5d484206eacc983ac752c783bd6b8cae4a401c9b2bd55a82a9c727fb
Shell
1,470
35
#!/bin/bash ################################################################################ ### COPYRIGHT ################################################################## # New York Genome Center # SOFTWARE COPYRIGHT NOTICE AGREEMENT # This software and its documentation are copyright (2023) by the New York # Geno...
a04e53aedcebc7eb9ff9df30f74a195c451e3ab2dbf8d77b715f4abf5b469e38
Shell
1,472
49
#!/usr/bin/env bash # # update_svaba_image.sh — rebuild the svaba worker image from the builder VM. # # Stops the builder, deletes the old image, creates a new one, restarts # the builder. Takes ~2-3 minutes. # # Usage: # update_svaba_image.sh [options] # # --builder NAME builder VM name (default: svaba-imag...
031b25ad3a31eada086f468c727f6c3945caf5684111838eee607167438754f8
Shell
1,491
31
#!/bin/bash source ./utils.sh # Data path of all the project echo "Enter the complete data path of the project: " path=$(get_path ) #E.g. path="/home/brainstimmaps/20xx_Projects/2023_Deep/03_Data" # Patient subfolder echo "Enter the patient ID: " pat=$(get_patient ) pat_exist=$(check_original_data $path/$pat) echo ...
43e89d0ec419fb4f08f5db11225dda591c59cb0f20019f9f94bc8f006236fed2
Shell
1,492
52
#!/usr/bin/env bash set -euo pipefail if (( $# < 1 )); then echo "Usage: $0 <cmd> [args]" exit 1 fi OUT_LOG="memlog.txt" PLOT="memory.png" : > "$OUT_LOG" rm -f "$PLOT" "$@" & PID=$! echo "[$(date)] Started PID $PID: $*" >&2 START=$(date +%s) LAST_PLOT=$START while kill -0 "$PID" 2>/dev/null; do NOW=$(date +%s) ...
2b86f59e2b162ee64717eb9eed5a9a88525d9730ab6791c19a04ede84b8e5ff3
Shell
1,493
81
export CUDA_VISIBLE_DEVICES=0 python -u run.py \ --is_training 1 \ --root_path ./dataset/illness/ \ --data_path national_illness.csv \ --model_id ili_36_24 \ --model Reformer \ --data custom \ --features M \ --seq_len 36 \ --label_len 18 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --facto...
d72fc0e698eeaabee009dbfcf106cbe0523e8d1b25999f3ef0a2379fed91b7c7
Shell
1,493
81
export CUDA_VISIBLE_DEVICES=7 python -u run.py \ --is_training 1 \ --root_path ./dataset/illness/ \ --data_path national_illness.csv \ --model_id ili_36_24 \ --model Informer \ --data custom \ --features M \ --seq_len 36 \ --label_len 18 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --facto...
917142f5c7a544984e7b0023f0de53b0c1e6843b4d69f6c362a41986fcb19589
Shell
1,495
81
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/electricity/ \ --data_path electricity.csv \ --model_id ECL_96_96 \ --model Informer \ --data custom \ --features S \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor...
d633145e76cf4190404e3fa6a685425fc75bd99e4da193d7ea35b2a076462899
Shell
1,495
81
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/electricity/ \ --data_path electricity.csv \ --model_id ECL_96_96 \ --model Reformer \ --data custom \ --features S \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor...
6e314d36cec84b95dbf71b92af3c3b8f5adac5046e07edf4f624c06eb94c7f62
Shell
1,501
81
export CUDA_VISIBLE_DEVICES=1 python -u run.py \ --is_training 1 \ --root_path ./dataset/illness/ \ --data_path national_illness.csv \ --model_id ili_36_24 \ --model Autoformer \ --data custom \ --features M \ --seq_len 36 \ --label_len 18 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --fac...
0941e6edf199f4a30560e0983e53eac86744e2ace8f47cc653cf307801bc5e7a
Shell
1,505
81
export CUDA_VISIBLE_DEVICES=0 python -u run.py \ --is_training 1 \ --root_path ./dataset/illness/ \ --data_path national_illness.csv \ --model_id ili_36_24 \ --model Transformer \ --data custom \ --features M \ --seq_len 36 \ --label_len 18 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --fa...
55db02f75dbbee2893cbb59d484807e3f71a0711291009ccb65f27715416a292
Shell
1,507
81
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/electricity/ \ --data_path electricity.csv \ --model_id ECL_96_96 \ --model Transformer \ --data custom \ --features S \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --fac...
18967f95c8dea26346dd9b87e12d9d75f7bb62d1b431c41b578daf44e1bb88cd
Shell
1,513
83
export CUDA_VISIBLE_DEVICES=7 python -u run.py \ --is_training 1 \ --root_path ./dataset/weather/ \ --data_path weather.csv \ --model_id weather_96_96 \ --model Reformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3 ...
31e802406d3b7fac85c1bc1d4deb6073ebbea59a4a2398cc32465ec76a53c0fc
Shell
1,513
82
export CUDA_VISIBLE_DEVICES=0 # multivariate setting of vanilla transformer python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm1.csv \ --model_id ETTm1_96_96 \ --model Reformer \ --data ETTm1 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e...
b653b1085403891e057f270b871eec86c0340e2d66a961cc42f93a297e042813
Shell
1,513
83
export CUDA_VISIBLE_DEVICES=7 python -u run.py \ --is_training 1 \ --root_path ./dataset/weather/ \ --data_path weather.csv \ --model_id weather_96_96 \ --model Informer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3 ...
4f2cc1a99bfad7f99bb38ef835af8998a58f5eef48dcb5ca451a851c17578e7d
Shell
1,516
55
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) download_dir=$1 # check arguments if [ $# != 1 ]; then echo "Usage: $0 <download_dir>" exit 1 fi set -euo pipefail base_url=http://www.openslr.org/resources/141 parts="dev-clean test-clean dev-other test-other ...
7f600abab0e4ee9e8989f4799d44ab51033635e976eb7fa5972da59381aa606f
Shell
1,518
39
#!/bin/bash set -u set -e set -x version=`grep _versinon main/phylonet/coalescent/CommandLine.java|grep String|sed -e "s/.*= .//g" -e "s/.;//g"` echo Version $version cd main rm -f phylonet/coalescent/*.class phylonet/util/BitSet.class phylonet/tree/model/sti/STITreeCluster*.class phylonet/tree/io/NewickWriter.clas...
dae2e8de36b41314d8b42a3f0d6083a5c07ba79cc632799c7693aa95aeb3860b
Shell
1,521
83
export CUDA_VISIBLE_DEVICES=1 python -u run.py \ --is_training 1 \ --root_path ./dataset/weather/ \ --data_path weather.csv \ --model_id weather_96_96 \ --model Autoformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor ...
358543c8d4eca1bdc90661bcb573077f1db7d5464fab76d8604c254517dc075f
Shell
1,525
82
export CUDA_VISIBLE_DEVICES=0 # multivariate setting of vanilla transformer python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm1.csv \ --model_id ETTm1_96_96 \ --model Transformer \ --data ETTm1 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ ...
48ae7b1c71384a58ae6507bcf9d8fe2c7e7ff027c0c91d5bf669991184d300ce
Shell
1,525
83
export CUDA_VISIBLE_DEVICES=7 python -u run.py \ --is_training 1 \ --root_path ./dataset/weather/ \ --data_path weather.csv \ --model_id weather_96_96 \ --model Transformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor...
14d774315e765276c780793f5ecc94242da35252145e4299477f7149de5f073c
Shell
1,526
54
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_root=$1 data_dir_root=$2 # check arguments if [ $# != 2 ]; then echo "Usage: $0 <db_root> <data_...
2f698d139f52770264ec3ab4945fa3d8dab17b15a2382e1b8f436b3adeb4c782
Shell
1,528
82
export CUDA_VISIBLE_DEVICES=1 python -u run.py \ --is_training 1 \ --root_path ./dataset/electricity/ \ --data_path electricity.csv \ --model_id ECL_96_96 \ --model Autoformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --fac...
655eeb6db01086f8ad73c75b61498837ead5c00413eb5783a43d1cd70b4fecf2
Shell
1,539
81
export CUDA_VISIBLE_DEVICES=4 python -u run.py \ --is_training 1 \ --root_path ./dataset/exchange_rate/ \ --data_path exchange_rate.csv \ --model_id Exchange_96_96 \ --model Autoformer \ --data custom \ --features S \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \...
2b4c4079512ce5342ec269688173d6c91a0a4a39b39ad0ab7a05d1e417fe6b8f
Shell
1,544
86
export CUDA_VISIBLE_DEVICES=1 # ETTm1 dataset python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm1.csv \ --model_id ETTm1_96_96 \ --model Informer \ --data ETTm1 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ ...
866dc9f6cec7fcf87b08ab0e13062578bbe826cb2455f06025f167399ecf4531
Shell
1,552
82
export CUDA_VISIBLE_DEVICES=4 python -u run.py \ --is_training 1 \ --root_path ./dataset/exchange_rate/ \ --data_path exchange_rate.csv \ --model_id Exchange_96_96 \ --model Informer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ ...
5378bf6308aa0ee4191d170f67e0e459a8b3cc44f2b95909ebcdec9b73778f85
Shell
1,553
83
export CUDA_VISIBLE_DEVICES=4 python -u run.py \ --is_training 1 \ --root_path ./dataset/exchange_rate/ \ --data_path exchange_rate.csv \ --model_id Exchange_96_96 \ --model Reformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ ...
f303b061a8788d8df67561f5a696939217e4348c933cdafffa1c3b370ce8c705
Shell
1,557
86
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm2.csv \ --model_id ETTm2_96_96 \ --model Autoformer \ --data ETTm2 \ --features S \ --seq_len 96 \ --label_len 96 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \ ...
0f99aa062a5a0b2f63721784e4554f8235332a424f8bd19c9f78bd18fd95ad73
Shell
1,565
83
export CUDA_VISIBLE_DEVICES=4 python -u run.py \ --is_training 1 \ --root_path ./dataset/exchange_rate/ \ --data_path exchange_rate.csv \ --model_id Exchange_96_96 \ --model Transformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1...
e90a99126179dd113461cd085b0ab0abdaa0cff3b649423e2c238aec0848ace1
Shell
1,567
30
#!/bin/bash source ./utils.sh # Data path of all the project echo "Enter the complete data path of the project: " path=$(get_path ) #E.g. path="/home/brainstimmaps/20xx_Projects/2023_Deep/03_Data" # Patient subfolder echo "Enter the patient ID: " pat=$(get_patient ) pat_exist=$(check_original_data $path/$pat) echo ...
3a9490e85ca3efbffc43cd2b5a309535ee9f1f479008a64631fbdee671e824b4
Shell
1,582
84
export CUDA_VISIBLE_DEVICES=4 python -u run.py \ --is_training 1 \ --root_path ./dataset/exchange_rate/ \ --data_path exchange_rate.csv \ --model_id Exchange_96_96 \ --model Autoformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 ...
4f8b10fbfe7f0cd1bbe6d3d39d41fbfb2692e1d529c5c03aa178278ff74b6018
Shell
1,588
85
export CUDA_VISIBLE_DEVICES=5 python -u run.py \ --is_training 1 \ --root_path ./dataset/traffic/ \ --data_path traffic.csv \ --model_id traffic_96_96 \ --model Reformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \...
f2c3b3099b8bdbf42e37951ba207ba50ab40ad66495af62242e8b32ff60159fd
Shell
1,588
85
export CUDA_VISIBLE_DEVICES=5 python -u run.py \ --is_training 1 \ --root_path ./dataset/traffic/ \ --data_path traffic.csv \ --model_id traffic_96_96 \ --model Informer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \...
c5a6c0386d07f502525c1e65553bb905e79852bf515b10997abf8b757d1fb19d
Shell
1,590
66
#!/bin/bash ODBCINST=/etc/odbcinst.ini ODBC=/etc/odbc.ini TDS=/etc/freetds/freetds.conf DNSNAME=semehrdns SVRNAME=semehrsvr if [ ! -f "$TDS" ]; then echo "$TDS not found!" exit -1 fi if [ ! -f "$ODBC" ]; then echo "$ODBC not found!" exit -1 fi if [ ! -f "$ODBCINST" ]; then echo "$ODBCINST not fo...
55bd4686de1ac60285a4d769a6b31953e593e682aad37abb12bcd1016dd68875
Shell
1,594
28
#!/usr/bin/env bash # Copyright (c) OpenMMLab. All rights reserved. sed -i '$a\\n' ../../demo/docs/*_demo.md cat ../../demo/docs/*_demo.md | sed "s/#/#&/" | sed "s/md###t/html#t/g" | sed '1i\# Demo' | sed 's=](/docs/en/=](/=g' | sed 's=](/=](https://github.com/open-mmlab/mmpose/tree/master/=g' >demo.md # remove /doc...
c1164db916953c2a31f56c7ff6dd5f2b0227aaaf2aa4c41e9fee97c13c94be30
Shell
1,595
85
export CUDA_VISIBLE_DEVICES=6 python -u run.py \ --is_training 1 \ --root_path ./dataset/traffic/ \ --data_path traffic.csv \ --model_id traffic_96_96 \ --model Autoformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor 3...
d457f17d787ef5295256fe87d4bbb877b9b0fd808ce5d37e8496dc029fb99649
Shell
1,600
85
export CUDA_VISIBLE_DEVICES=5 python -u run.py \ --is_training 1 \ --root_path ./dataset/traffic/ \ --data_path traffic.csv \ --model_id traffic_96_96 \ --model Transformer \ --data custom \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 96 \ --e_layers 2 \ --d_layers 1 \ --factor ...
631fb0fe80b031a3f17a5cbc199deef7b6fa9e60a8b436aa67be207164b563e3
Shell
1,607
61
#!/bin/bash [ "$(id -u)" -eq 0 ] && SUDO="" || SUDO="sudo" # managing input arguments while getopts "s:b:r:t:" OPTION; do case $OPTION in s) src_dir=${OPTARG};; t) branch=${OPTARG};; r) release_dir=${OPTARG};; b) build_dir=${OPTARG};; \?) echo "Invalid option: -${OPTARG}" >&2;; esac done if [...
472e79ca06913a99ca314b54909770ddfb046e5bb10f90491029323789d78163
Shell
1,639
28
#!/usr/bin/env bash # Copyright (c) OpenMMLab. All rights reserved. sed -i '$a\\n' ../../demo/docs/*_demo.md cat ../../demo/docs/*_demo.md | sed "s/#/#&/" | sed "s/md###t/html#t/g" | sed '1i\# 示例' | sed 's=](/docs/zh_cn/=](/=g' | sed 's=](/=](https://github.com/open-mmlab/mmpose/tree/master/=g' >demo.md # remove /do...
5cf07d001d4206369784c434dd1ed02ad2ccd84c62120188adcb629e3c908aae
Shell
1,644
12
gpu=0 k_dim=3 k_mode=itx problem=group-$k_dim-$k_mode CUDA_VISIBLE_DEVICES=$gpu python3 run.py --problem $problem --num_heads 8 --num_layers 6 --hidden_dim 256 --train_batch_size 16 --epochs 20 --train_warmup_percent 40 --train_data_dirs './data_generation/data0511a' --k_dim $k_dim --k_mode $k_mode --train_data_glob...
9b44b0a3d1c658d8d0c7607b96552f3bea09741cd1809f41b17a6d5f672d5b3b
Shell
1,652
45
#!/bin/bash BASE_DIR="$(dirname "$(readlink -f "${0}")")" source "${BASE_DIR}/AppRun.env" # GTK 3 does not consistently map the portal color scheme to a dark theme. # Set it before GLFW initializes libdecor, unless the user already chose one. if [[ -z "${GTK_THEME:-}" ]]; then color_scheme="" if command -v d...
e5bfa33c7680c6553e718d263ac157efe712ea17423b51424c357af5bea08b1d
Shell
1,665
16
#!/bin/bash gsutil -m cp gs://fc-77539204-5aa7-4c5a-9286-e00ec3aa11b3/r_code/scaso_terra.R ./src/scaso_terra.R gsutil -m cp gs://fc-77539204-5aa7-4c5a-9286-e00ec3aa11b3/r_output/figure_1.png ./display_items/figure-1.png gsutil -m cp gs://fc-77539204-5aa7-4c5a-9286-e00ec3aa11b3/r_output/ana_cyno_cerebellum_full.tsv ./da...
94ea357290097d71c04d5fdd37c3b56d872d34d79fdd80f0c8729107a54f86b0
Shell
1,670
49
#!/bin/bash ## run cellBender to remove ambient RNA background ## run this on djembe/tabla where GPU and CUDA were setup correctly ## activate the `CellBender_GPU` conda environment before running this script # conda activate /home/AD/jchien/.conda/envs/CellBender_GPU ## logging which server and which conda environme...
df852b2be6b306977d9e633f2c1f0cdae719f350e1484698b1263d8ffaa27ad2
Shell
1,671
49
#!/bin/bash ## run cellBender to remove ambient RNA background ## run this on djembe/tabla where GPU and CUDA were setup correctly ## activate the `CellBender_GPU` conda environment before running this script # conda activate /home/AD/jchien/.conda/envs/CellBender_GPU ## logging which server and which conda environme...
fa0d00a34db3b9af3ce4530953ac936968c9b5a106337563b6dee23c1b0414ff
Shell
1,692
13
python train.py --dataroot /research/cbim/vast/qc58/pub-db/MMWHS/processed/fsl/2d --name FSL_exp1 --input_nc 3 --output_nc 2 --model fsl --netG resnet_9blocks --direction AtoB --lambda_L1 100 --dataset_mode fsl3db --pool_size 0 --gpu_ids 4 --batch_size 10 --display_freq 300 --num_threads 0 --norm instance --d_size 3 ...
c6e7acffa3e9bc73da9a988cfd8ed81fa9294c73544f5f9a187c3c2bbfd1c29c
Shell
1,708
58
#!/bin/sh set -e -u DIST_DIR=${1} # defaults METHOD=${METHOD:-""} TASK=${TASK:-""} echo "checking Python-package distributions in '${DIST_DIR}'" pip install \ -qq \ check-wheel-contents \ twine || exit 1 echo "twine check..." twine check --strict "$(echo "${DIST_DIR}"/*)" || exit 1 if { test "${TASK}...
6b04064b938eebef7c9b4679ebc0c060011c7fbacf1adb424261e88e71c96e33
Shell
1,741
60
#!/usr/bin/env bash # # gcloud_teardown.sh — kill svaba cloud workers and clean up the bucket. # # Usage: # gcloud_teardown.sh [options] # # --id STR analysis ID (default: my_run) # --partitions N number of workers (default: 5) # --zone ZONE GCP zone (default: us-central1-a) # --bucket gs://...
b793fa23f4be00f3663869098882006dd235fcc4c6efcdbc685549efcd42a190
Shell
1,774
85
#!/bin/bash set -ex # install pyflakes to do code error checking echo "pip3 install pyflakes --cache-dir $HOME/.pip-cache" pip3 install pyflakes --cache-dir $HOME/.pip-cache # Conda Installation wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh bash miniconda.sh -b -p $HOME/mi...
79c19a069eacf0bbf96bbdf2f7f2d90e054ee0063380e01207ecd89f0e19f454
Shell
1,780
75
#!/usr/bin/env bash set -euo pipefail if (( $# < 1 )); then echo "Usage: $0 <cmd> [args]" exit 1 fi OUT_LOG="memlog.txt" PLOT="memory.png" # Clean slate : > "$OUT_LOG" rm -f "$PLOT" # Start the users command "$@" & PID=$! echo "[$(date)] Started PID $PID: $*" >&2 START=$(date +%s) LAST_PLOT=$START # Monitor u...
8755aaed22a27f5d8f5fc741602068a27e30e80142a792c8816ac698aa70d956
Shell
1,808
86
#!/bin/bash test -e ssshtest || wget -q https://raw.githubusercontent.com/ryanlayer/ssshtest/master/ssshtest . ssshtest set -e make if [[ ! -e data/pe.pos_sorted.bam ]]; then wget http://layerlab.org/lumpy/data.tar.gz tar xzvf data.tar.gz fi _fn_bp_pe_sr() { set -eo nounset MIN_MAP_T=$1 BACK=$2 TT=$3 READ_LEN...
b8663b825280463b888ff1f2d2a63672b2c76cb05d914813e2b10667ac777038
Shell
1,828
28
# how to run the NeuronCounting pipeline # allows you to run this code from anywhere and the internal relative paths still work fine cd "$(dirname ${BASH_SOURCE[0]})" || exit; # first, run the environment setup script. This makes sure that the shell and python all know where imaris etc are source ../environment_setup.b...
3c0cc94a2d8ed0cd131ad66bb0b400734bf65cfbd838107842fc3b8e59c387bb
Shell
1,835
101
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTh2.csv \ --model_id ETTh2_96_24 \ --model Autoformer \ --data ETTh2 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \ ...
94dc59bccbe97567633030fe0beca466d973849755992d239fc0c29d6f7a58fa
Shell
1,835
101
export CUDA_VISIBLE_DEVICES=1 python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTh1.csv \ --model_id ETTh1_96_24 \ --model Autoformer \ --data ETTh1 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \ ...
87eb8840da7ffe08755014772fc7a7302d176b815cf88dfc1ca8363de958dd44
Shell
1,841
57
#!/bin/bash # Copyright 2020 Tomoki Hayashi, Adapted in 2022 Gunnar Thor Örnólfsson # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; train_set="train_nodev" dev_set="dev" eval_set="eval" # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_root=$...
18b2299d075b36872d4b08efcceab58ab7cfc0c85f77d15c90fe321e6499add3
Shell
1,856
48
#!/bin/bash PODCAST_ROOT="${PODCAST_ROOT:-/engram/naplab/users/rs4613/Podcast}" CONDA_ENV="${CONDA_ENV:-/home/rs4613/.conda/envs/audio_tag}" SIF="${SIF:-/engram/naplab/users/rs4613/vscode.sif}" #SBATCH --output=wavlm.out # Output log file #SBATCH --error=wavlm.out # Error log file #SBATCH --mem-per-cpu=16G #SBATCH -...
e12ee91d8ab438f5c1307f2c611bdc51db5e403d01e4cf76cb47aa1476473b9b
Shell
1,862
48
#!/bin/bash PODCAST_ROOT="${PODCAST_ROOT:-/engram/naplab/users/rs4613/Podcast}" CONDA_ENV="${CONDA_ENV:-/home/rs4613/.conda/envs/audio_tag}" SIF="${SIF:-/engram/naplab/users/rs4613/vscode.sif}" #SBATCH --output=hubert.out # Output log file #SBATCH --error=hubert.out # Error log file #SBATCH --mem-per-cpu=16G #SBATCH...
0b0a1ef043670655817e55499efa721f75d02d695c4ba8018d01186dfea30c6b
Shell
1,873
48
#!/bin/bash PODCAST_ROOT="${PODCAST_ROOT:-/engram/naplab/users/rs4613/Podcast}" CONDA_ENV="${CONDA_ENV:-/home/rs4613/.conda/envs/audio_tag}" SIF="${SIF:-/engram/naplab/users/rs4613/vscode.sif}" #SBATCH --output=whisper.out # Output log file #SBATCH --error=whisper.out # Error log file #SBATCH --mem-per-cpu=16G #SBAT...
dc9a26147caba6cb09113765fcb9022f602b60d4f7c3adc506839fc98f49551a
Shell
1,908
106
export CUDA_VISIBLE_DEVICES=2 python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm2.csv \ --model_id ETTm2_96_24 \ --model Autoformer \ --data ETTm2 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --factor 1 \ ...
a7a93bc413fac66e33f5cddebc42172b00843dc7256fd24301eb47edbc6620a9
Shell
1,910
107
export CUDA_VISIBLE_DEVICES=1 python -u run.py \ --is_training 1 \ --root_path ./dataset/ETT-small/ \ --data_path ETTm1.csv \ --model_id ETTm1_96_24 \ --model Autoformer \ --data ETTm1 \ --features M \ --seq_len 96 \ --label_len 48 \ --pred_len 24 \ --e_layers 2 \ --d_layers 1 \ --factor 3 \...
75931edd45ed4a1d1ec9b73a120e24797eae3bb483bbf30a46735f6b79b7573c
Shell
1,912
43
# how to run the NeuronCounting pipeline # allows you to run this code from anywhere and the internal relative paths still work fine #cd $(dirname ${BASH_SOURCE[0]}) || exit; cd $WORKSTATION_CODE/shared/img_processing/NeuronCounting/examples || exit; # first, run the environment setup script. This makes sure that the s...
93f902c8ece6b6eaef88acb50183a99532dbdc0d261fd23d73104a52d38416ea
Shell
1,941
65
#!/bin/bash # #$ -q iblm.q # #$ -o $HOME/sge/out #$ -e $HOME/sge/err # #$ -t 1-126 #$ -V # WASP_DIR=$HOME/proj/WASP/ DATA_DIR=/iblm/netapp/home/gmcvicker/data1/gmcvicker/data/WASP_power_calcs TASK_LIST=$DATA_DIR/power_sim_params.txt # add one to task id to skip header line LINE=$((SGE_TASK_ID + 1)) # read simulati...
8757ba0cb77979547ae0b3d9b903829063e08a97612032d5e88f962687bf18a1
Shell
1,954
76
#!/bin/bash # Make subset files located in data direcoty. # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; if [ $# -ne 3 ]; then echo "Usage: $0 <src_dir> <num_split> <dst_dir>" echo "e.g.: $0 data/train_nodev 16 data/tr...
d5c965fbfa537c0c2a327b39e476e637b867828b9eb88e6cb0feb7d12a0d5730
Shell
1,957
76
#!/bin/bash # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; num_dev=250 num_eval=250 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_root=$1...
b63f08670590c606e338a4707f3aa52a0da734828be87a429c1280dd4857d0a6
Shell
1,960
76
#!/bin/bash # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; num_dev=250 num_eval=250 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_root=$1...
01ee28ae8d2ded318bde7d80af5cdd644f8a2406617bf378826792c7e22becac
Shell
1,965
41
problem="hero" stamp="20230515-094404" step=1000000 testdata="data0511a" savedir="analysis0511a-v4-len" len_demo_cond_lens=(10 20 30 40 50 60 80 100 200 500) len_demo_qoi_lens=(10 20 30 40 50 60 80 100 200 500) len_quest_cond_lens=(10 20 30 40 50 60 80 100 200 500) len_quest_qoi_len=2600 for index in ${!len_demo_co...
5b7f6772a3bf6b6bbe42190f055ac57daa118f728576142225b0ba6f6a6a5033
Shell
2,017
76
#!/bin/bash # Combine data direcotries into a single data direcotry # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) if [ $# -lt 2 ]; then echo "Usage: $0 <dist_dir> <src_dir_1> <src_dir_2> ..." echo "e.g.: $0 data/all data/spk_1 data/spk_2 data/spk_3" exit 1 fi set -...
79c29db5772d04dc99b126e5387adbc49d558daf068598f3a605aaa99b0672a2
Shell
2,041
1
CUDA_VISIBLE_DEVICES=3 python cal_fid.py --real_h5 ../../../../data/datasts/brats/General_format_BraTS18_train_2d_0ch.h5 --fake_h5 ../../../../data/datasets/asdgan_syn/brats_h5_all/brats_resnet_9blocks_epoch10_experiment_0.h5 ../../../../data/datasets/asdgan_syn/brats_h5_all/brats_resnet_9blocks_epoch20_experiment_0.h5...
059f8e2e6d177033772a5e8299d3243f724b20d8449f0aab0e6c7c9f5ac8621a
Shell
2,042
1
CUDA_VISIBLE_DEVICES=3 python cal_fid.py --real_h5 /data/datasets/asdgan_data/exp1_heart/train_all.h5 --fake_h5 /data/datasets/asdgan_data/asdgan_syn/heart_h5_all/heart_resnet_9blocks_epoch10_experiment_0.h5 /data/datasets/asdgan_data/asdgan_syn/heart_h5_all/heart_resnet_9blocks_epoch20_experiment_0.h5 /data/datasets/a...
6c1411b4a773be1e4ad864a1d08d0c8ca61f00c25a275c25a863a6535f61e5d4
Shell
2,051
1
CUDA_VISIBLE_DEVICES=3 python cal_fid.py --real_h5 /data/datasets/asdgan_data/exp2_path/for_seg_256/train_all.h5 --fake_h5 /data/datasets/asdgan_data/asdgan_syn/path_h5_all/path_resnet_9blocks_epoch10_experiment_0.h5 /data/datasets/asdgan_data/asdgan_syn/path_h5_all/path_resnet_9blocks_epoch20_experiment_0.h5 /data/dat...
e578962ff058f5cf83c33713e05d3ce322a2331a2cf7fe7cd25ca0435078e256
Shell
2,072
31
#python train.py -c config_files/config_fsl_seg_exp1-fedgan-split.json -d 3 #python train.py -c config_files/config_BRATS_4ch_exp_4_train_val.json -d 0 #python train.py -c config_files/config_fsl_seg_exp1-fedgan.json -d 0 #python train.py -c config_files/config_fsl_seg_exp1-real.json -d 0 python train.py -c config...
2bed8046f398e7f6784e8dc9f5db504e82769e957ce22d0b8d1449f61fd66e27
Shell
2,116
87
set -euo pipefail export vcf=$1 export bams=$2 export LINES=250 svtpar() { set -euo pipefail subvcf=$1 lib=$TMPDIR/tmp.$mypid.$(echo $bams | md5sum | awk '{ print $1 }').lib svtyper -B $bams -i $subvcf -l $lib # vcf is a temporary file so clean it up. # but for the first time, it's and fd fro...
033b6e4700c5183953a5ce906819d345d1fdf24abebfa238e513ee0ca2cd7751
Shell
2,151
80
#!/usr/bin/env bash # Copyright 2021 Tomoki Hayashi # Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0) # shellcheck disable=SC1091 . ./path.sh || exit 1; num_dev=250 num_eval=250 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit...
76e9aa366757ed4995411cdf51b66850ad9b3e7ae5085f40628067db013d1525
Shell
2,181
1
CUDA_VISIBLE_DEVICES=3 python cal_dist_fid.py --real_stats ../asdgan/run/brats/asdgan_mc/experiment_5/client_0_data_stats.npz ../asdgan/run/brats/asdgan_mc/experiment_5/client_1_data_stats.npz ../asdgan/run/brats/asdgan_mc/experiment_5/client_2_data_stats.npz --fake_h5 ../../../../data/datasets/asdgan_syn/brats_h5_all/...
a7fd160661be10bb839f36e75f685ba1ffeccb4225bbbbac3aa8910d6a4f9eb2
Shell
2,275
71
#!/bin/bash # WHAT IT DOES # performs eddy current correction, yielding (among the other files) dwi_den_unr_preproc.mif) # creates a brain mask (dwi_den_unr_preproc_bet_mask.nii.gz) # WHAT IT NEEDS # The script Preprocessing.sh already executed # A good path/pat/DWI/eddy/b0_bet_mask.nii.gz # (visually inspect with m...
ba9dc895866ba6f1cdd4064371c2e601561849180fea00c3caae55dca99fc98a
Shell
2,293
83
#!/bin/sh # add gene symbols to the counts and TPM matrix awk 'BGEIN{FS="\t";OFS="\t"} NR==FNR{a[$1]=$2;b[$1]=$3} NR>FNR && FNR==1{ x="geneID"; printf x"\t"a[x]"\t"b[x]; for (i=1;i<=NF;i++){ gsub(/\"/,"",$i); sub(/\/Quant.genes.results/,"",$i); printf "\t"$i }; printf "\n"} NR>FNR && FNR>1{ y=$1; gsub(/\"/,...
6cb35c92a145b7aeabc48819f4d19d6528ca69919108169e8e55f98d32db8fec
Shell
2,338
41
#!/usr/bin/env bash # Directory $test_data_dir should have contents of supplementary files (File_S1.txt, *.HuRef.*, and RLCRs.txt) output_dir="reproduce_results_out" mkdir $output_dir test_data_dir="test_data" # Convert raw output files to common format ./convert_CNV_calls_to_common_format.py $test_data_dir/Canvas....
bbedf6d49048d23807cb875fec347070c3580ce16da0897aa776989cd692d33f
Shell
2,338
82
#!/usr/bin/env bash # Copyright 2022 Gunnar Thor Örnólfsson # Apache 2.0 (http://www.apache.org/licenses/LICENSE-2.0) download_dir=$1 # check arguments if [ $# != 1 ]; then echo "Usage: $0 <download_dir>" exit 1 fi set -euo pipefail cwd=$(pwd) if [ ! -e "${download_dir}" ]; then mkdir -p "${download_...
ef967e66cbeac4a8ae589ab319852c1caffa3d88c65b06a02912dbeab410a77c
Shell
2,348
85
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_root=$1 part=$2 data_dir=$3 db_label_root=$4 # check arguments if [ $# -lt 3 ] || [ $# -gt 4 ]; then...
7f6964ac91f3fcff3d240114ceefbd0e8e98465c20ac2a825528f4da32cdd32c
Shell
2,360
87
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; fs=22050 num_dev=100 num_eval=100 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; d...
fb7a22301440eee16ec9c60e63b93444447aaacb00fc987a8c325a9a4a3de19d
Shell
2,406
90
#! /bin/bash set -xe if [[ -z "${TMPDIR}" ]]; then TMPDIR=/tmp fi set -u if [ "$#" -lt "1" ] ; then echo "Please provide an installation path such as /opt/ICGC" exit 1 fi # get path to this script SCRIPT_PATH=`dirname $0`; SCRIPT_PATH=`(cd $SCRIPT_PATH && pwd)` # get the location to install to INST_PATH=$1 ...
48e2647e86c67935bcbc0b2574b3553ebfc58e269e4d018dfdc887b0c95958f3
Shell
2,408
41
# how to run the NeuronCounting pipeline # allows you to run this code from anywhere and the internal relative paths still work fine #cd $(dirname ${BASH_SOURCE[0]}) || exit; cd $WORKSTATION_CODE/shared/img_processing/NeuronCounting/examples || exit; # first, run the environment setup script. This makes sure that the s...
ccbc98e43dbe4a34d6bc4a520a2131177f2ceccc46face8be7823bc06b37f4d2
Shell
2,423
89
#!/bin/bash # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; num_dev=500 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; # check arguments if [ ...
be6867b15f3fa87dc2dc8bff53bfed16106ea5db9b8a0bbdb186ccdb26f7ad2b
Shell
2,446
75
#!/bin/bash # Check that lib_lightgbm has exactly the expected global symbols. # # [usage] # # # lib_lightgbm.{dll,dylib,so}: exports exactly the symbols in .ci/expected-symbols.txt # .ci/check-abi.sh lib_lightgbm.* # # # R package's shared library: no unexpected symbols (some std:: templates and other # #...
6608bb34f029a9ee13f9b17a2011860e6941c5e26bf6c15285bc68b832ee75d6
Shell
2,472
88
#!/bin/bash # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; num_dev=10 num_eval=10 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false use_fake_segments=false # shellcheck disable=SC1091 . utils/parse_options.sh ...
6a1eccd9306deb3453e0fea12e8fbe07a97098567824a45e42e43ed9216d5e13
Shell
2,491
58
#!/bin/bash ## The purpose of this script is to register the HCP_Pipeline derived orig.mgz file of each subject into the subject's b0 diffusion space ## PREREQUISITES: # 1. Process the T1- and T2-weighted sequences of the Penn subjects using the Human Connectome Project (HCP) pre-processing pipelines: (https://githu...
ddb399db80b0c0ea819eb898852371364c3bd984e85d933128834001e1b35b88
Shell
2,498
58
#!/bin/bash # The purpose of this script is to compute the average intracortical myelin content on the Human Connectome Project (HCP) subjects # using the HCP multi-modal (aka Glasser) atlas-defined brain regions. ## PREREQUISITES: # Before running the script you need to download: # 1. The publicly available 100 unr...
f7d22516739fb51da77d1b1df50f187a1873bba4094c886cc90ca71b34b4bffd
Shell
2,513
79
#!/bin/bash # # Linear Sync Toolkit (linsync) # Copyright (C) 2023 Joseph T. Lizier # Distributed under GNU General Public License v3 # Modified from Simple cluster jobs framework distributed under GPL by J.T. Lizier # # ----------------------------------------------------------------- # # Submits one job of startProce...
f9173811dc54dccf4b5a9da2cf9e8c2540ebc3d2195bca5835697d13e17de268
Shell
2,523
106
#!/bin/bash # managing input arguments #-------------------------------------------------------- usage() { cat << EOF This script detects the operating system and executes the corresponding builder file. usage: $0 [[-h]] [[-s source_directory]] [[-b build_di...
8263ea319ec3a4c462c6d6efde169e53a99b6b4aad32844ee91d50b6bf86acf7
Shell
2,538
72
#!/bin/bash # WHAT IT DOES # estimates the response function # estimates the fiber orientation distribution # performs normal intensity normalization # WHAT IT NEEDS # The script Preprocessing2EDDY.sh already executed # A good path/pat/DWI/eddy/dwi_den_unr_preproc_bet_mask.nii.gz # (visually inspect with mrview and ...
bfa1eba612f2abbbffb8ebfb8a03a057c2b94ef68dc7f748739b01981dceffa6
Shell
2,538
64
#!/bin/bash ################################################################################ ### COPYRIGHT ################################################################## # New York Genome Center # SOFTWARE COPYRIGHT NOTICE AGREEMENT # This software and its documentation are copyright (2023) by the New York # Geno...
c98005c3457fdde9328774ede0b3e6b53df803feedf6c81aad71abe65f46cd3e
Shell
2,607
93
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; fs=22050 num_dev=5 num_eval=5 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_ro...
d4e0ff091c8f5564187bd2e7bf857eca9ebb8db9eaa694b2dc23a4a585e293a6
Shell
2,607
93
#!/bin/bash # Copyright 2020 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; fs=24000 num_dev=5 num_eval=5 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; db_ro...
2f69be7c8dfd98049b1c56538ccd45d578fbac37f180e9546194799311dd8490
Shell
2,613
91
#!/bin/bash # managing input arguments while getopts “s:b:r:t:” OPTION; do case $OPTION in s) src_dir=${OPTARG};; t) branch=${OPTARG};; r) release_dir=${OPTARG};; b) build_dir=${OPTARG};; d) build_type=${OPTARG};; \?) echo "Invalid option: -${OPTARG}" >&2;; esac ...
9191c64595da816578d3569c20fba1d5a8b7f5d65ddb8f5a9b6c55df3e201263
Shell
2,629
91
#!/bin/bash # ============================================================ # Search a BAM for reads matching any of the given sequences # (or their reverse complements) and write matches to a new BAM. # # Usage: # ./bam_grep.sh <input.bam> <output_prefix> <seq1> [seq2 ...] # # Example: # ./bam_grep.sh tumor.bam egf...
d3e87f9f86dad69613a283dd1e058cbc33c5a08be0037e26c3ae8ce283860ef3
Shell
2,662
51
#!/usr/bin/env bash # sim_config.sh -- central configuration for the svaba SV simulator. # Sourced by run_sim.sh and mix_tumor_normal.sh. Override any of these by # exporting them before invoking, or edit here. All paths may be relative. # ---- reference + output ---------------------------------------------------- : ...
bef33838337cecff8eedae2e729abacf9baf5252f0bfc86da961e8346470b5f6
Shell
2,680
82
#!/bin/bash PODCAST_ROOT="${PODCAST_ROOT:-/engram/naplab/users/rs4613/Podcast}" CONDA_ENV="${CONDA_ENV:-/home/rs4613/.conda/envs/audio_tag}" SIF="${SIF:-/engram/naplab/users/rs4613/vscode.sif}" # Fig 5e with the lexical predictability control (Reviewer 1, comment 1.3). # # Runs semantics_lexical_layers.py over every la...
c6e921009644336302a37ca2da36a5de46aaefd059979c4b8bab7076ee0749fe
Shell
2,686
79
#!/bin/bash ########## LICENCE ########## # Copyright (c) 2014-2020 Genome Research Ltd. # # Author: CASM/Cancer IT <cgphelp@sanger.ac.uk> # # This file is part of AscatNGS. # # AscatNGS is free software: you can redistribute it and/or modify it under # the terms of the GNU Affero General Public License as published b...
30c4b742eeca73e30012fda728988f56d03d5b46ba5fcd7853cb1d80854eaff7
Shell
2,718
93
#!/bin/bash # Copyright 2019 Tomoki Hayashi # MIT License (https://opensource.org/licenses/MIT) # shellcheck disable=SC1091 . ./path.sh || exit 1; fs=24000 num_dev=250 num_eval=250 train_set="train_nodev" dev_set="dev" eval_set="eval" shuffle=false # shellcheck disable=SC1091 . utils/parse_options.sh || exit 1; d...
b4d104d0ebc4e29679529b0237bdb9eb2e953e8147d877c425347a60cc3d3e18
Shell
2,773
53
# Conservation Law L2 loss with batch size 8 for forward and 8 for reverse # set "--train_batch_size 2n" for batch size n for forward and n for reverse python3 run.py --problem 'icon_weno' --epochs 100 --train_batch_size 16 \ --train_data_dirs '/home/shared/icon/data/data0904_weno_cubic' \ --test_data_dirs '/home...
586891b77ef2a8ad349c307a5b923bb10ca4fa21f0304e03a7a8d860a5a9be7f
Shell
2,792
54
#!/bin/bash # WHAT IT DOES # Creates group avrage response fuctions so as to enable comparison of Fiber Orientation distributions # Computes individual fiber orientation distribution (FOD) based on common group average # Performs Intensity normalisation of individual FOD # WHAT IT NEEDS # all the scripts of the Diffu...