sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
31e3058c0957dfe27fe87beddb970e9e9e5fc579f57dbd0a67a695f3e154b957 | Shell | 733 | 12 | FMMLIBNAME=-lfmm3d
FMM3DBIELIBNAME=-lfmm3dbie_matlab
FMMPATH=/mnt/home/mrachh/lib
FMM3DBIEPATH=/mnt/home/mrachh/lib
LLNAME=flattrirouts
MWNAME=${LLNAME}.mw
GATEWAY=${LLNAME}.c
rm -rf lpeval_flattri.o
rm -rf potint2.o
gfortran -fPIC -march=native -O3 -c lpeval_flattri.f90 -o lpeval_flattri.o -L${FMMPATH} ${FMMLIBNAME} -... |
4ad14c200e89d8937a6f2a32b719cd317226b526e7d2f013a23a247043a8d510 | Shell | 733 | 23 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
04deba97a67fc55d7ca7e3d91d3d8760775c2e8bc099aaf9de677278bc1fbf06 | Shell | 735 | 19 | #!/bin/bash
labels_path=/home/emma/Documents/SBB/atlas/LPBA40-labels.csv #path to csv file with atlas labels
velo_path=/home/emma/Documents/SBB/IXI_nonlin_velo_fields_reduced #path to folder with velocity fields
#generate masks for each region in label atlas
python save_roi_masks.py
#generate pca model for each regi... |
2ea34d12224b679f3db6daa1f4daf022ea8f3f78185c4ac50ddce09f01af0b64 | Shell | 735 | 26 | #! /bin/sh
########## Path
# script directory
script_dir=/home/leon_ooi/storage/ABCD/ABCD_scripts # temporary
# folder of ABCD tabular data
ABCD_table_dir=/mnt/eql/yeo12/data/ABCD/documents/release2.0/ABCDstudyNDA # update
# folder of t1 imaging data
t1_data_dir=/mnt/isilon/CSC2/Yeolab/Data/ABCD/raw/images
# folder... |
a94dccb827f17d9cf6fe168570c831a8e1c2bebe607b9a902d79abbb2450ff4f | Shell | 736 | 20 | #!/bin/bash
export BIOSHELL_DATA_DIR="../../../../data"
# Extract chain A from each deposit (to remove water, ligands, other chains, etc)
./strc -select:chains=A -in:pdb=test_inputs/1clf.pdb -select:aa -op=1clfA.pdb
./strc -select:chains=A -in:pdb=test_inputs/1pc5.pdb -select:aa -op=1pc5A.pdb
# Run the actual alignm... |
13dca864a0a0b179938d8f2790fac0750c4ac53de09b0839348e838933d90d89 | Shell | 738 | 12 | #!/bin/bash
#Purpose: transform LanA atlas from fsaverage nifti to fsaverage6 gifti files
#Notes: Gifti files were created through two steps. 1. Conversion to fsaverage6 space. 2. Conversion to gifti format.
#Written by M. Peterson, Nielsen Brain and Behavior Lab under MIT License 2023
#Conversion from fsaverage to fs... |
e1d4ed6df62ad26a4a02c5937b559d8ea0b55b9a7ee525fb4d3503653a73f511 | Shell | 739 | 15 | #!/bin/bash
export BIOSHELL_DATA_DIR="../../../../../data"
echo "# Running ./ap_contact_map_overlap SC ./test_inputs/2gb1.pdb ./test_inputs/2gb1-model1.pdb 4.5"
./ap_contact_map_overlap SC ./test_inputs/2gb1.pdb ./test_inputs/2gb1-model1.pdb 4.5
echo "# Running ./ap_contact_map_overlap SC ./test_inputs/2gb1.pdb ./te... |
a92925d72db3c81f65d04f85068025004600b204cc1e6162eb8466fd81ec0576 | Shell | 741 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
c37b1fdb0e3f6a20ffdc5d1ea292e070e24634f50319c98bf6156f19feb291ee | Shell | 743 | 30 | viewpoint=V1O1
for viewpoint in ep0
do
python3 ../train_simclr.py \
--lars_wrapper \
--max_epochs 100 \
--batch_size 512 \
--data_dir /data/lpandey/UT_Austin_EgocentricDataset/output_64x64Squished/train1_80k/${viewpoint} \
--seed_val 0 \
--backbone resnet_2blocks \
... |
11416bec66a7beabade4b8778ac0e125de1ad5e0547bea20b91e00afb8578fad | Shell | 745 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
6da57bb81c3765909c5910b3a46c73d01a2a5a11694eefbdb0638b44317d162e | Shell | 745 | 23 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
6ea9dcbe2e12a95c3036c3d9b383e0383bd59fe42fe5b36b19e877414640f7b2 | Shell | 745 | 5 | #! /usr/bin/env bash
python /opt/elephant/script/train.py --baseconfig /opt/elephant/script/train_configs/base_train_seg_versatile3d_001.json seg /opt/elephant/script/train_configs/versatile3d_001.json
python /opt/elephant/script/train.py --baseconfig /opt/elephant/script/train_configs/base_train_seg_versatile3d_002.js... |
a86ffd40984b1d0526c57531810714f898b2b4b5009f3d138917b84b5fd0f232 | Shell | 746 | 11 | #!/bin/sh
#SBATCH --job-name MC100k # this is a parameter to help you sort your job when listing it
#SBATCH --ntasks 1 # number of tasks in your job. One by default
#SBATCH --cpus-per-task 1 # number of cpus for each task. One by default
#SBATCH --partition public-cpu ... |
bf1d634b1530f131c2596c49d67095c2858d446b11764e24d8110280df38043c | Shell | 746 | 20 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
3a20ad14bcf97176ca65386a4ddbe2720faebf8223e32f46b2840f20d638377e | Shell | 748 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
8ae10a9f2641b3949fca09114494b2f1bdf3326488cdb0f5dacf4461dc5123a4 | Shell | 748 | 15 | #!/bin/bash -l
python3 model_eval.py \
--tpu_name="pod_uscentral" \
--tpu_zone="us-central1-a" \
--wandb_project="enformer_rampage_ft" \
--wandb_user="njaved" \
--wandb_sweep_name="enformer_rampage_ft_test" \
--gcs_path="gs://enformer_baseline/hum... |
9b1d1d27601a8c228311a831a4a50168303eb2b41be08a510125466432f24ad3 | Shell | 751 | 34 | #!/bin/bash
# Fail fast
set -e
# Ensure results are written to a scratch directory
export QUACC_RESULTS_DIR=$SCRATCH/jenkins
# GULP
module purge
pytest tests/core/recipes/gulp_recipes --noconftest
# Gaussian
module purge
module load gaussian/g16
pytest tests/core/recipes/gaussian_recipes --noconftest
# ORCA
module... |
98be5a1bcd804969d5d36546c1aa21fc24e43a91481edad0b3b5b72b24cb91ea | Shell | 752 | 15 |
# (c) Coraline Rinn Iordan 07/2017, 10/2017, 10/2019
# Align prototype without skull stripping
# $1 : PARAMS.TEMPLATEDIR
# $2 : PARAMS.LOCALIZERANAT
# $3 : PARAMS.CURRENTANAT
# $4 : PARAMS.LOCALIZERTEMPLATE
# $5 : PARAMS.NIFTIDIR
# $6 : PARAMS.PROTOTYPE.FINALFILE
\@Align_Centers -base "$1"/"$2"+orig -dset "$1"/"$3"+... |
65693396d97c77b2760fd6b8a3d8620169fbaf659df91e0a1088c80637e11b7e | Shell | 753 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
03b351162c0ca2100230d7db22488011bf8c3045622ee2ade60cab52f46488d0 | Shell | 754 | 20 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
fcfc981eafaf97c65296b7c2cf0f302ec7a38d211e0b89c8662431adf82f6d8a | Shell | 757 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
44e3f3b3a6557b9af5c541bec2416e96211105bb57aecb067cbdc366f9ef052b | Shell | 759 | 22 | #!/bin/bash
# 1. receive essential arguments from dag input
read1=$1
read2=$2
indir_staging=$3
outdir_home=$4
job=$5
# 2. set paths
outdir_condor=$outdir_home/$job
in_tarball=$indir_staging/$job\.tar.gz
# 3. mkdir for receiving output (log files) from HTCondor at home directories
mkdir -p $outdir_condor
# 4. prepar... |
c79508adeaa0b33e2acc8dd1705535e277d0f55aeb9cfaeaab9c80cb10fb99cb | Shell | 759 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... |
af732c75f794e89bf44d9e48f99b6abd5f0f514309ad317e1a60123412e7266d | Shell | 760 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... |
e91262078abc8c8ff6132d78dc2d65c94a24cf632c6984bc3d0dc3bf730435ee | Shell | 760 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... |
ecff80315cfc5f1c4c52f263256a918e934ec100f5f58f142e0dedddc4b421e2 | Shell | 760 | 19 | #!/bin/sh
#SBATCH --job-name=fmriprep
#SBATCH --nodes=1
#SBATCH --ntasks=1
#SBATCH --cpus-per-task=4
#SBATCH --time=04-00
#SBATCH --output=/home/intoumanis/sugar/code/logs/fmriprep_%A_%a.out
#SBATCH --error=/home/intoumanis/sugar/code/logs/fmriprep_%A_%a.err
#SBATCH --array=50
module load singularity/3.2.0
cd /home/i... |
6cebc929060d7675c1da62bc6bfcb5f9de91fed73d37ba8bb6414776b1d80bf9 | Shell | 764 | 35 | #!/bin/sh
#$ -N hidden-size-effect-1
#$ -cwd
#$ -q cuda.q
#$ -S /bin/bash
#$ -M lukas.galke@mpi.nl
#$ -m beas
# Halt on error
set -e
cd /home/lukgal/git/emlib/easy_to_learn
module load miniconda/3.2021.10
conda activate pytorch
pip install -r requirements.txt
NUM_ITER=1000
SEED=42000
OUTDIR="./results_ll_hidden_... |
0b4865409e4aebb33cbfbb33ae27c039e260707499150247bdcb1c331e887722 | Shell | 766 | 26 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
d88cf4ec27e5503d6cd98bfed841e61f5bc97043f8a06f792fff0d17abb492b7 | Shell | 768 | 29 | #!/bin/bash
NUM_NODES=1
NUM_GPUS_PER_NODE=2
NODE_RANK=0
MASTER_PORT=$(shuf -n 1 -i 10000-65535)
BATCH_SIZE=8
LOAD_PATH=checkpoints/molnextr_best.pth
SAVE_PATH=predict_output
mkdir -p ${SAVE_PATH}
set -x
torchrun \
--nproc_per_node=$NUM_GPUS_PER_NODE --nnodes=$NUM_NODES --node_rank $NODE_RANK --master_addr localh... |
d0a2ccea8e237868630a019e95ccaa444eda8a15d6806d187f563435b3458c39 | Shell | 770 | 20 |
# find duplicates between NACC data set and Mayo CAA study
# 3 duplicates found with batch A
king \
-b data/adc/adc_np.bed,data/mc_caa/Genetic_Variants/GWAS\ Genotypes\ -\ Batch\ A/MC-CAA_snpArray_batcha.bed \
--duplicate \
--prefix data/mc_caa/batchA_adc_dups
# 2 duplicates found in Batch B
king \
-b data/... |
663616706ee4f8a3c805b924cc18cf34d40c08505c375f969a58b77e9e017866 | Shell | 771 | 18 | # enable conda and activate the notebook environment
CONDA_PROFILE="${CONDA_DIR}/etc/profile.d/conda.sh"
test -f $CONDA_PROFILE && . $CONDA_PROFILE
if [[ "${KERNEL_PYTHON_PREFIX}" != "${NB_PYTHON_PREFIX}" ]]; then
# if the kernel is a separate env, stack them
# so both are on PATH, notebook first
conda acti... |
1159fc5f9b95a95b29c080e0f7b3e79c5000babc2e0eee49f18bd0b8a343dbc2 | Shell | 772 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
46228ab2c9d04a502dd9f09dfa2cc6c6ee9c820508bd181199f8c393387813d5 | Shell | 775 | 20 | #!/bin/bash
## parameters
wd=/home/siyuan/jobs/suzukii_WGS/EAA/data/genotype_data
in_snp_dir=/home/siyuan/jobs/suzukii_WGS/call_snp/amb/updated_poolsnp/paratest/test_maxcov/call_snp_maxcov_99/mincov_12_mincount_1
in_sample_size=/home/siyuan/jobs/suzukii_WGS/rename_samples/cloned_input/sample_size.txt
in_chr_assign=/ho... |
8e50767a79cb38c66c50469bb0f67fc6e3565ec6d2de7542ab0a9a45d43bb8ad | Shell | 775 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
04c851929d6124c146983c7165581faaa0bd0707801835edc7454a2742107a5c | Shell | 778 | 38 | #!/bin/bash
# Script to run download_drug_data.ipynb for several different
# drugs using papermill, writing the resulting plots to the
# drug_response_dists directory.
# Note that this must be run from the parent directory
# {repo_root}/08_cell_line_prediction.
kernel_name="pc-eval"
papermill_output_dir="./papermil... |
14adf13d4b2e46f0e482bbbcd393c0a6d9932c73b4ee4b28d4ed8c6476bdb770 | Shell | 782 | 13 | ##phenotype is prepared by leafcutter
for bamfile in $(ls ~/*.bam);do£» echo Converting $bamfile to $bamfile.junc; sh bam2junc.sh $bamfile $bamfile.junc; echo $bamfile.junc >> Chinese_juncfiles.txt; done
python /leafcutter/clustering/leafcutter_cluster.py -j Chinese_juncfiles.txt -m 50 -o ../output/Chinese -l 500000
py... |
a6902a82b44cde6a09b8456a8b5569735c964588a948cedcdbf73c68416c63df | Shell | 783 | 27 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
f4c373e8d480da226c4c12c234d407606797e5839517608676297763e5cee9a4 | Shell | 783 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
052393ea2214bfea86bc978f3494db4a75b171d49f7da0791a8e104043d95a3f | Shell | 785 | 26 | #!/bin/bash
#
# This script will append all TWAS results files (from
# each tissue) into one file.
#
# Gokberk Alagoz - 10.04.2023
#############################
# PATHS
inDir="/data/clusterfs/lag/users/gokala/beat-dyslexiaevol/results/TWAS/"
#############################
# add tissue name to each file
#for i in ${in... |
f9c8fd93b7345fe1377cc1a0a0fd8a128ec9e05fa9c59664fd49cb8c098c0d6a | Shell | 785 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
07e77acc42529b0936ba18cbbda8dec08fd9d2219742cd9b29be820e290eea80 | Shell | 787 | 22 | # This script is used to organize directories and files. Then,
# only the eyes closed segments are extracted from the source
# reconstructed data (without structurals).
# Copy source reconstructed data
cp -r src_no_struct/ src_ec_no_struct/
# Remove `logs` and `report` directories for memory
rm -r src_ec_no_struct/l... |
e0dfe12f7c7cefce99e5ba6be31b454f374b8468c41a05a43c31243a8f126fc0 | Shell | 787 | 21 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
54335b44a1897ce8d02d3f2b2c4d37f8ae3c63c7bc24eff762a3faa8fe421ae0 | Shell | 789 | 28 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
d9660e1a327cdc8631a0f6f2f8a5f9a12256ebee099063f9c3b0a43a4a2c2686 | Shell | 789 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
9a669c82c50b9f36daa72f8a0891a533079da837444f3b3609c32caff493123f | Shell | 791 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
55416226ac008dc3d591103c936b3c3ae56e89c650e0fe845de869c5c44223f1 | Shell | 792 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
ff130c5bf6bc5d8459187093fcbb608e350cace6211d57f31cce34703d134842 | Shell | 793 | 32 | #!/bin/bash
#Purpose: submit jobs to generate individual full-surface FC matrices
#Set paths and vars
HOME=/fslgroup/fslg_spec_networks/compute
CODE_DIR=${HOME}/code/HCP_analysis/ai_spec/ALL/individual_ai
#Submit a job for each sub/sess
for sub in `cat ${CODE_DIR}/subjids.txt`; do
SUB=sub-${sub}
#make new matla... |
b13a59ca6f623def53cb87a55fdad253684d31f2fe29604d4432dc655a040503 | Shell | 795 | 24 | # This script is used to organize directories and files. Then,
# only the eyes closed segments are extracted from the preprocessed
# and source reconstructed data.
# Copy source reconstructed data
cp -r preproc/ preproc_ec/
cp -r src/ src_ec/
# Remove `logs` and `report` directories for memory
rm -r *ec/logs
rm -r *e... |
2355c6d52cdc10777575f1ad85fc7665a7f9d1eed5488d46f93a99b69570d15e | Shell | 796 | 31 | #!/bin/bash
#
#SBATCH --job-name=dataset_to_tfrecords
#SBATCH --out="slurm-%A_%a.out"
#SBATCH --cpus-per-task=2
#SBATCH --mem=4000
#SBATCH --nodes=1
#SBATCH --time=2-00:00:00
#SBATCH --array=0
##SBATCH --partition=mcdermott
##SBATCH --partition=use-everything
#SBATCH --requeue
offset=0
job_idx=$(($SLURM_ARRAY_TASK_ID ... |
17f5363bf9c2e171ebd96e252ffd3d05b70a0c73afb7ecfd031b67fe1a5a67b5 | Shell | 799 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
033a0fee3841357176460b057ce7b08912b5a49f688e90249fe235a4302a6564 | Shell | 800 | 16 | #!/bin/sh
# Written by Gia H. Ngo and CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
cd ~/storage
rsync -a --exclude .git CBIG/* Standalone_CBIG_Yeo2015AuthorTopicEM
# remove unused stable projects
rm -r Standalone_CBIG_Yeo2015AuthorTopicEM/stable_projects/brain_parcellation
rm -r... |
db9cd65b998d9d7d4fa6d9db386083cef162736309cea87e6c5c900239d8b844 | Shell | 800 | 17 | #!/bin/bash
#Create Flatfile
touch /opt/h2oai/flatfile.txt
flatfile="/opt/h2oai/flatfile.txt"
wget http://s3.amazonaws.com/ec2metadata/ec2-metadata
sudo chmod u+x ec2-metadata
INSTANCE_ID=$(./ec2-metadata | grep instance-id | awk 'NR==1{print $2}')
AG_NAME=$(aws autoscaling describe-auto-scaling-instances --instance... |
dda3beeb664e83c417c136a68601d0dacffba2c525c1ae9e76422828ff058e7c | Shell | 800 | 32 | #!/bin/bash
#=====================================
# prep for PC-AiR on related data set
#=====================================
prefix=rosmap
prefix_out="$prefix"_np
# one final pass at variant QC
plink \
--bfile tmp/"$prefix"_3 \
--maf 0.005 \
--geno 0.05 \
--hwe 1e-6 midp include-nonctrl \
--make-bed \
... |
62e66e711a79efb6db2f4c4a0643a3787c15b3d1ed6fbebd7727d5daac794681 | Shell | 802 | 23 | #!/bin/bash
# File: run_AP_dropcurrent.sh
# Author: Kelly Chang
# Date: Oct 2017
# Version: 1.0
#
# Description: Bash script to run AP simulations for the 12 CiPA training
# drugs using uncertainty inputs (i.e. drug parameters from
# sampling distributions), wit... |
09d97d634d422e03bac06764ac0d68b6500240306e596a96310ff365d929688a | Shell | 803 | 18 | #!/bin/bash
#
# This script will download UKB sumstats when provided
# a list of UKB phenotype codes from Neale group's
# data repo: UKBB GWAS Imputed v3 - File Manifest Release 20180731
#
# Gokberk Alagoz - 02.02.2023
#
#############################
phenoList="/data/workspaces/lag/workspaces/lg-genlang/Working/23andM... |
cd3daac0db2668aafa51e847d07b2a28f88c09c806487becc0ec754577b44186 | Shell | 803 | 27 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
c88ec6052b0eb677f107d2a74bfd81b8485a754e7e3b29eb46d2d362416e8b06 | Shell | 804 | 17 | #!/bin/bash
## analyze files in an order that makes sure dependencies are analyzed before their depending units
## this could be done, e.g. by using post-order traversal in case we have a dependency tree
mkdir -p ghdl
ghdl -a --workdir=ghdl -fsynopsys build/lstm_network/linear/*_rom.vhd
ghdl -a --workdir=ghdl -fsynop... |
3d05d7ad25b793fe01d224735a3df047bba8034944758a614236527106c87cd3 | Shell | 812 | 30 | #!/bin/bash
#Purpose: submit jobs to generate individual full-surface FC matrices
#Set paths and vars
CODE_DIR=/fslgroup/fslg_spec_networks/compute/code/HCP_analysis/FC_matrices/ALL
#Submit a job for each sub/sess
for sub in `cat ${CODE_DIR}/subjids/subjids.txt`; do
SUB=sub-${sub}
#make new matlab and job script... |
3d01bfd32395dbe0696ce28c54571f4ad5bf8b18398c09786f62dbb02306cc2d | Shell | 813 | 15 | #!/bin/bash
# run the job
bash parallel_by_block.sh \
-w /raid10/siyuan/marula_storage/jobs/suzukii_WGS/reannotate/calc_divergence/corrected_N_sites \
-a /raid10/siyuan/marula_storage/jobs/suzukii_WGS/reannotate/for_reannotate.fa \
-m /home/siyuan/reference/WT3-2.0/multi_align/suz_3.0_bia_1.0_mel_6.03/map_modified \
-... |
ac1f1902bd08eb3f6e532a4a7c01d65ae9edb89efef65b7ef1291448300b826f | Shell | 817 | 10 | echo "Running case 1, uniform distribution in inner membrane"
python3 main.py --ntasks 1 --submit-tscc mito --mesh-file /root/scratch/meshes/mito_mesh.h5 --curv-file /root/scratch/meshes/mito_curv.xdmf --outdir /root/scratch/single-compartment-im --single-compartment-im
sleep 10 # avoid opening mesh file at the same t... |
fd9caf37af04e22b82283b33a6387b6d760d1aa841e1d9e04c34c97952332069 | Shell | 820 | 26 | #!/bin/sh
ftrait=$1
fannot=$2
foutput=$3
trait=$(basename "$ftrait")
annot=$(basename "$fannot")
echo "*** Beginning LDSC partitioned heritability..."
echo "Trait: $trait"
echo "Annot: $annot"
echo "Output: $foutput"
module load python/2.7.15
python /home/gokala/programs/ldsc/ldsc.py \
--h2 ${ftrait} \
--out ${fo... |
04003a81085e75a6f87fb06071540e2192e2753b677141141dfe152725e98cbc | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
349e54f801c69e0d129c3f1f51acd9808e5be492649916ca251ebb9cfb837f6e | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
90ec99e0bdb958a3b0ec8b998ff9525826808f7df1d6658d8cb8dbd00db56c70 | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
9894589aa40afbe15fb394bf9b24ec2853318442f3d17f05f326c05f4b0292ee | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
a585e4ea54230cd8a1ea8655757f8d05613e1b1d7ba493d21d3705becddf0752 | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
a9a9e29b873c575bcec1c2b8bc6193382270af5adae04421ea83d904dab5987a | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
b5f0312490aa8fc155f10697231516d0c417790843b93350de3a9caf7f666f57 | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
bd4bb84dbc3640f0902083c3f19ced138d122cd354b6cf8699aae4ac16619b8a | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
bd5bb45e5e357cec7adc0e4de460664f972321ce9877a1bd2f750ee7300a89c7 | Shell | 823 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
b41e385d6a791a6ffdaa5b5b57dd476161e3b4b12a267527527eb8a3698b4df0 | Shell | 824 | 35 | #!/bin/bash
set -ex
set -o pipefail
go_to_build_dir() {
if [ ! -z $INPUT_SUBDIR ]; then
cd $INPUT_SUBDIR
fi
}
check_if_meta_yaml_file_exists() {
if [ ! -f meta.yaml ]; then
echo "meta.yaml must exist in the directory that is being packaged and published."
exit 1
fi
}
build_pa... |
3e452a8a52f26fa2d880b1db6a25db007cf00b91f5e0acf9a468acc3e416bba5 | Shell | 826 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... |
a8bf7f69fe1637b8265160f5231feae879572fdcd0de09efc5a0a930f22a4cd5 | Shell | 828 | 28 | #!/bin/bash
ses=baselineYear1Arm1 # baselineYear1Arm1 or 2YearFollowUpArm1 for ABCD
task=MID
model=contrast-Sgain-Base_mask-mni152_mot-opt1_mod-CueMod_fwhm-8.4
min=25
max=525
subj_ids=${1} # sub-IDs, to subsample from to create set1 and set2 for ICC
seed_list=${2} # list of 100 seeds for subsampling
inpfold=/scratch.g... |
3ca321e5e60c3d08d2c3bdc85b5ac58f221d41a2fabb7f7c9871276f36c34826 | Shell | 829 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
5d4107e31cf89b3143d77e6644129aede6dda6da131b6e94931f4ed9e402b11a | Shell | 829 | 30 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
8a335318e1df988171a6c42d5312dd406a2719f6ed931884a939a34b3cd0df5c | Shell | 830 | 28 | #!/bin/bash
# extractDP.sh [bgzipped chr1 VCF] [output directory]
VCFTMP=$1
OUTDIR=$2
PLOTSCRIPT='/home/tl483/rds/rds-rd109-durbin-group/projects/cichlid/cichlid_g.vcf/main_set_2019-07-10/fAstCal1.2/GenotypeCorrected/depth_filter/scripts/plot_dp.R'
chr=(1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 22 23)
header... |
8d8c14668b7d74f7fd2ce93534156d68e8852d855fddf1c3f9d1de6d8253f1b6 | Shell | 833 | 31 | #!/bin/bash --login
#SBATCH --nodes=10
#SBATCH --ntasks-per-node=40
#SBATCH --time=10:00:00
#SBATCH --job-name='Multirun LFPy Circuit'
#SBATCH --account=rrg-etayhay
#SBATCH --mail-type=ALL
#SBATCH --mail-user=agmccrei@gmail.com
#SBATCH -o output_1.out
#SBATCH -e error_1.out
module load NiaEnv/2018a
module load intel/... |
dd78d9f304e2a3462e0a1e935be9490f561dfd78feeb9936852ee5656eac0fdb | Shell | 833 | 32 | #!/bin/bash
PYTHONPATH="${PYTHONPATH}:$PWD/../"
test_path=$PWD
cd ../tutorials/exp_ssmb/tracing/
printf -v cmd "%s" "python mb_graph_cyto.py"
echo $cmd
$cmd | tee $PWD/../../../tests/results/mb_graph_cyto.log
printf -v cmd "%s" "python mb_graph_lumen.py"
echo $cmd
$cmd | tee $PWD/../../../tests/results/mb_graph_lum... |
1e6f19892270b0a5576eefebc14ccf0f85d11805236653ebb222d84333f69b1f | Shell | 835 | 14 | #!/bin/bash
# Written by Csaba Orban and CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
cd ~/storage
rsync -a --exclude .git CBIG/* Standalone_Orban2020_time_of_day
# remove useless stable projects
rm -r Standalone_Orban2020_time_of_day/stable_projects/brain_parcellation
rm -r Stan... |
7dd3a1151a988778e299eff2fa7eaac7e111e9939a235621cf212f75163877d8 | Shell | 836 | 35 | #!/bin/bash -l
# call with:
# >> sbatch runslurm [submit as job]
# Job name
#SBATCH --job-name=30trialsPerCdt
## Mail events (NONE, BEGIN, END, FAIL, ALL)
###############################################
########## example #SBATCH --mail-type=END,FAIL
##############################################
##SBATCH --mail-typ... |
fc57529e126d6bef26b450127bdae49145cd785cdd660a56f5109a7b8b9c18ba | Shell | 837 | 26 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
5354747d2dc34dca541e9657066d12d55f3d8dd014adf65e1f77ba74df449a14 | Shell | 838 | 26 | #!/bin/bash
# Activate environment
source activate sampl6_logP
# Update requirements
conda list --export > requirements.txt
# Run first step of analysis and create collection file
python logP_analysis.py
python logP_analysis2.py
# Compile LaTeX statistic table twice for better rendering
pdflatex ./analysis_outputs/... |
703bd9343f5a0f03eedbf4c0ebf22b971e0a7f0623e5a6449f3fa94be0a004ca | Shell | 841 | 22 | #!/bin/bash
#SBATCH --job-name=crop_narrative
#SBATCH --time=10:00:00
#SBATCH --output=/home/intoumanis/sugar/code/logs/crop_narrative-%A-%a.out
#SBATCH --error=/home/intoumanis/sugar/code/logs/crop_narrative-%A-%a.err
#SBATCH --array=31-49
module load Python/Anaconda_v11.2021
source activate expert_power
sub=$SLURM... |
96730a946357e725bef4b0244601a8ac9905fd0f25ca151724942c0f3c44fbc9 | Shell | 842 | 25 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
71c90032eafe6617ce1497cb4fe06d2c5305d1428c4c31be8445db92a721d7fb | Shell | 844 | 22 | #!/bin/bash
email=a.alemany@hubrecht.eu
Dt=20:30:00
Dmem=10G
threads=1
if [ $# -ne 5 ]
then
echo "Please, give in this order the following inputs"
echo "1) root of fastq.gz files to map together (common part in all of them)"
echo "2) pool lanes [y, n]"
echo "3) protocol. Options are: [celseq1, celseq2,... |
d0b108c4b0dcfd94ebda8b4a4dca7dbbcfe12ffb5fcf70cd437446482ec192ae | Shell | 844 | 31 | #!/bin/bash
# Script to run lasso_range_gene_optimizers.ipynb for several different
# genes using papermill, writing the results to the fs_plots directory.
# Note that this must be run from the parent directory
# {repo_root}/01_stratified_classification.
kernel_name="pc-eval"
papermill_output_dir="./papermill_outpu... |
d1f9f6ff76adcb9bc60f7cf5640c82ae0b634ab75518dca855322cbcc5b75f28 | Shell | 844 | 29 | #!/bin/bash
# 0. activate the conda environment under /home/sfeng77 to run samtools
source /home/sfeng77/anaconda3/bin/activate WGS_analysis
# 1. receive essential arguments from dag input
sequencing_run=$1
outdir_staging=$2
outdir_home=$3
indir_home=$4
job=$5
# 2. set paths
outdir_condor=$outdir_home/$job
indir_con... |
9b9d3aee78c11e0e9732bcb1fbf266801eba155a9c8be62dc8d9de5630c7346a | Shell | 848 | 24 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable ... |
9e335118cd1967f623a4b932731c09521363d60a76bd5f3489923a960477dc98 | Shell | 848 | 26 |
meta_dir=./code/gwas/meta
# bash "$meta_dir"/prep_polmm_results_for_metal.sh
# bash "$meta_dir"/prep_saige_results_for_metal.sh
# for pheno in hs grossinf microinf microinf grossinf cerad braak caa arteriol atheroscler lewy_body late braak_apoe cerad_apoe late_apoe caa_apoe
# do
# metal "$meta_dir"/"$pheno"_meta... |
8a194aad9ad19afd6931ca71b1743a1511d701c7c8dcb34b82435ddf74034774 | Shell | 849 | 31 | #!/bin/bash
## run this test from the build directory, ie above tests/
littler=./r
echo "Shebang 1"
$littler tests/shebang foo
echo "Shebang 2"
$littler tests/shebang foo bar
echo "Shebang 2, verbose"
$littler --verbose tests/shebang foo bar
echo "Piping a file to r"
cat tests/test1.R | $littler
echo "Piping a file... |
a04b6b54058eba316daef035adfb44bd064c71357fecba4c7592be9b49061332 | Shell | 852 | 23 | #!/bin/sh
current_dir=`pwd`
code_dir="./../../../Core_code/"
ncores=80
output_folder="/home/asantoro/COST/Project2_Higher_Order_Brain/Brain_HORS/Figure2/Results/HO_indicators/"
#file_input="/home/asantoro/HCP/100307/rfMRI_REST1_LR/Schaefer100/TS_Schaefer100S_gsr_bp_z.mat"
cd ${code_dir}
for subjID in `ls -d /home/... |
959fe9e533ad0e04a5388a8d8b6710eb626c7e160588cd1b381389c887b6cccd | Shell | 853 | 26 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
ca057148fe936d4d1385f88edc393580e9a81984e32ad7fd67a2feaacbfdf57f | Shell | 856 | 21 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
833aa1eb453efc09b7dc8683775209f867d91a05234f95011d7f9ffeff88216e | Shell | 857 | 31 | #!/bin/bash
# Script to run lasso_range_gene.ipynb for all genes in Vogelstein dataset
# using papermill, writing the results to the output directory in the script.
# Note that this must be run from the parent directory
# {repo_root}/08_cell_line_prediction.
kernel_name="pc-eval"
papermill_output_dir="./papermill_o... |
b48718ca25e0af530d5a0aeb0e1d0a9e42cb441d8a2b1f9506c295335a471176 | Shell | 859 | 10 | #!/bin/bash
# bash calc_diversity_same_sites_ts_updated_poolsnp_paratest.sh 12 10 > run_mincov_12_mincount_10.log 2>&1
bash calc_diversity_same_sites_ts_updated_poolsnp_paratest.sh 12 1 > run_mincov_12_mincount_1.log 2>&1
# bash calc_diversity_same_sites_ts_updated_poolsnp_paratest.sh 12 8 > run_mincov_12_mincount_8.l... |
129b6a6466a9c2d4226766acfb16fa41d02d19351f370558e3617b1c9e97bc4c | Shell | 860 | 23 | #!/bin/bash
export BIOSHELL_DATA_DIR="../../../../../data"
mkdir -p outputs_from_test
echo -e "#Running CA ./ap_contact_map test_inputs/2kwi.pdb 8.0 > 2kwi.ca.cmap"
./ap_contact_map CA test_inputs/2kwi.pdb 8.0 > 2kwi.ca.cmap
echo -e "#Running CB ./ap_contact_map test_inputs/2kwi.pdb 6.0 > 2kwi.cb.cmap"
./ap_contact_m... |
f846ecce9f75f8ac652e7260f054ac29d56526c9abc95626b10fcffa18a7300f | Shell | 861 | 51 | #!/bin/bash
N=10
function loopBC {
echo
echo -n " --- GNU bc doing the addition $N times"
i=0
while [ $i -lt $N ]
do
echo "1+2" | bc -l > /dev/null
i=$((i + 1))
done
}
function loopLittleR {
echo
echo -n " --- our r doing the addition $N times"
i=0
while [ $i -lt $N ]
do... |
da5b6216f5ef8ebbbc404748e862d2b07eda7548de841812c497050196ffb203 | Shell | 862 | 24 | #!/bin/sh
# Written by Xiuming Zhang and CBIG under MIT license: https://github.com/ThomasYeoLab/CBIG/blob/master/LICENSE.md
queue=circ-spool
# BET on baseline scans in 11 batches
# Each batch uses a different set of BET parameters/procedure
outDir=~/storage/forPNASRelease/outputs/VBM_bl/brains/
for i in {1..11}; do... |
371420c604dc22ce1f6c84f2496d956cab31c7e17094d62079705e4400f9a2a2 | Shell | 866 | 44 | #!/bin/bash
if [ `whoami` != "root" ]
then
echo "Must run as root: sudo bash"
exit
else
echo "Confirmed running as root"
fi
if [ -n "$STY" ]; then
echo "Confirmed running inside of GNU screen."
else
echo "Not running inside of GNU screen."
exit
fi
cd /local1/work/ginkgo-uploads
if [ ! -r ~/list.clean ]
... |
22e94bae51286bf3d73b8bcb6b83823e793cdd7674392191f5454a9243d1705c | Shell | 867 | 28 | #!/bin/bash
# Copyright 2026 The Google Research Authors.
#
# 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 ... |
Subsets and Splits
No community queries yet
The top public SQL queries from the community will appear here once available.