sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
9891a867fc542d7a8a556ff4a4a5e641e8283f26a8408386b126929f00f28e3c | R | 196,906 | 1,830 | ---
title: "Longitudinal RSI~AP by Sex"
author: "Devyn Cotter"
date: '2022-04-28'
output:
html_document:
fig_caption: yes
toc: yes
toc_depth: 4
toc_float:
collapsed: no
word_document:
toc: yes
toc_depth: '4'
pdsens3way_document:
toc: yes
toc_depth: '4'
editor_options:
chunk... |
301f1f934d2a452841c0ff79eacb5b00ea01bed816df4f4922052f9faf0fb878 | R | 200,000 | 1,531 | ---
title: "Longitudinal RSI~AP by Sex"
author: "Devyn Cotter"
date: '2022-04-28'
output:
html_document:
fig_caption: yes
toc: yes
toc_depth: 4
toc_float:
collapsed: no
word_document:
toc: yes
toc_depth: '4'
pdf_document:
toc: yes
toc_depth: '4'
editor_options:
chunk_output... |
356506571aa552b5384fa43eb324dc00ffb641adb2f8c0356dc9391a375d829e | R | 200,000 | 1,955 | ---
title: "Longitudinal RSI~AP by Sex"
author: "Devyn Cotter"
date: '2022-04-28'
output:
html_document:
fig_caption: yes
toc: yes
toc_depth: 4
toc_float:
collapsed: no
word_document:
toc: yes
toc_depth: '4'
pdf_document:
toc: yes
toc_depth: '4'
editor_options:
chunk_output... |
b1c5e062b628d7792a6226390d49a895a95c48d20a63aace51d77ec968384618 | R | 200,000 | 7,251 | #Command line code
#conda activate muscat_env
#cd /mnt/f/PFC_429_final_Spring2021/Vanshika/muscat
#R < central_dogma.R --no-save
library(Seurat)
library(dplyr)
library(ggplot2)
library(limma)
library(muscat)
library(purrr)
library(scater)
#Variables
full_list=list(
"amyloid",
"gpath",
"gpat... |
16744278e7a967126db6e4b8f8b42baf1167402ed0195b074a306b7f59462502 | R | 200,001 | 4,772 | ---
title: "Analyzing structure-function relationships in human brain"
author: "Evan Collins"
output: html_document
date: '2024-02-06'
---
All code in this markdown document has written by Evan Collins. Any questions can be sent to evantomcollins@gmail.com.
Note that all files generated from `process_neuroquery_data.... |
1fa6d140465785b2b241486ecbcd266c18d4752535f7dd96076727a7715d4f30 | SPSS | 2,094 | 58 | * Encoding: UTF-8.
DATASET ACTIVATE DataSet1.
GLM mean_REACH_EE T0_EE mean_BRING_EE mean_REACH_EP T0_EP mean_BRING_EP
/WSFACTOR=ACTION_TYPE 2 Polynomial EPOCH 3 Polynomial
/METHOD=SSTYPE(3)
/EMMEANS=TABLES(OVERALL)
/EMMEANS=TABLES(ACTION_TYPE) COMPARE ADJ(BONFERRONI)
/EMMEANS=TABLES(EPOCH) COMPARE ADJ(BONF... |
3eb7278e7eef13fb361e9fd655340c710bfba34dd57048b4c0494c3ed1f919fd | Shell | 8 | 1 | autoconf |
de1abe19ff9af056332997d8f2ff4f7ccdaf5d2a3bff963e3bb14ecfe63b5802 | Shell | 22 | 1 | docker build -t hoge . |
602cf304bdac0ebe7db48a61c106de706c7f5b9e6097458a71825e35d65a1158 | Shell | 26 | 1 | nvcc main.cu -o main_cuda
|
95abe9ee74bc69e9a1cd41f31511722b209ffb77e7ad54cd724f50d08c615909 | Shell | 26 | 1 | nvcc main_rms.cu -o myrms
|
ee842badfa7f7255c1b86483e0ae71fb3dd0a32c16d2f3a653ad0b39c5a09803 | Shell | 29 | 1 | autoreconf --force --install
|
a5a2ff4eff1d10ec93773f36b2911dc53ed5e5fbc66e5ad0ddb8fb6b18cd5d95 | Shell | 37 | 3 | bash mavenMake.sh
mvn clean package
|
99e2b4fd3eddfcf5925ca55b2b3d23c8020702c6cb7eff825c02d63e9785e342 | Shell | 39 | 1 | autoreconf --force --install -B src/m4
|
e28e9202e12770b47579d6d914a89153289e7f371a72cd01bcd2fe4fafa4d877 | Shell | 39 | 1 | delta-filter -1 aln.delta > aln.1delta
|
98a1e87a3227bcbf194262a8ab9950e45cf0fd4b13fd68ddc6e9208ef710ae4b | Shell | 44 | 1 | /usr/bin/supervisord -c "/supervisord.conf"
|
cb7f470faaab7d4a569b0c87aa15ff6939d73ec603b7cbe92ea2aafe6248f69d | Shell | 47 | 3 | #!/bin/bash
docker build . --tag ensemble_gnn
|
e35f68e7da6028913ab0f43c12c1ec26cf2f4c7d42941a7d3ad1efde54bac7b6 | Shell | 47 | 2 | export MTXDIR=$DBDIR/multiRegion/matrices/mtx
|
ca7d5f3c12ec7baa08ffcbeffb32aa28b1a0ae158067ad12dd2df1db5037f108 | Shell | 48 | 2 | #!/bin/bash
sed -e 's/\s/ /g' -e 's/ */ /g' $@
|
27fa918cebe0c86b515ec4dbb05f4f327af0d1bd680f45f9b0166e4cde4b54c8 | Shell | 58 | 5 | #!/bin/bash
set -euo pipefail
echo "Pre-hook ${1-test}"
|
163af709d97df2feba1250aa3c059d2fcf019ed61bcaaa0a1c726dbe13fb4f37 | Shell | 63 | 3 | #!/bin/bash
cd ~/github/ProjectAPI/
echo $(git rev-parse HEAD)
|
4f2793ec0dabcaf26fd92f597618af843d7de886e219ab51dc54b04d3a673d88 | Shell | 64 | 5 | #!/bin/bash
OutDir=./out
cat ${OutDir}/*.txt > ./score_sum.txt |
8d67cbd14e2d945b2b800eafd71215a90bb0fa4ccff977f82715c429447afea4 | Shell | 67 | 7 | #!/bin/bash
set -euo pipefail
echo "Pre-hook test error"
exit 1
|
7778649814661b3d866d50b36bb7d0c0d4937686cd16c2dfabe5928fbedabdcc | Shell | 68 | 1 | nucmer -p aln transcripts_chr1_chr9_rev.fa transcripts_chr1_chr9.fa
|
4f9d85ccfe099f4a82e2e4006cf079e8639ac87a27f56097064e9cf21bd02293 | Shell | 69 | 1 | $PYTHON setup.py install # Python command to install the script.
|
98ce64739aa77e20b41441f8490bbd05de35da2393ee486151fdf07cc86274ed | Shell | 73 | 3 | #!/bin/bash
DOCKER_BUILDKIT=1 docker build --output type=local,dest=. .
|
aea0110b423ea74238ef0cf5e84cb173fac6a67a3218792e4b8a3cc5a8e7c2b2 | Shell | 78 | 6 | # conda activate scdtest
cd ..
pip install .
cd docs
make clean && make html
|
920e807dcdd01d8cae41f8eb101938d6052a8098c332353dc3143c6dc794e39c | Shell | 79 | 2 | sudo docker run -it --ipc=host --gpus all -v $PWD:/media deeplabv3 /bin/bash
|
9890c0d77090d9ecac090b1ae252bd1d2adc56809b8455f855a503455c77d02a | Shell | 85 | 1 | singularity shell --nv --bind $PWD:/media --bind ../20211117/:/data ../deeplabv3.sif
|
9a1570adba3413e6d01fa66db9597481fccec90b380c9aa6f2b73e3615bd1aaa | Shell | 85 | 4 | docker-compose up
# docker exec -it postgres psql -U deepface_user -d deepface
# \dt |
ddf25e04f54ed0c05d5065b395df744d4ba9f0fd4dc5944d1fdcb4503d4bbf81 | Shell | 85 | 3 | #! /bin/bash
docker build -t srp33/colorblind_image_tester . --platform linux/amd64
|
4d908080a9a43a6f1aafe492b93bd1db0736ac89b2756ce566e3e67534e2995f | Shell | 87 | 6 | #!/bin/bash
number_of_times=$1
for i in `seq $number_of_times`
do
printf "==="
done |
30fb2576d43f725977238fa143bdbc3c70c88879470ee2bc0754612870dfc500 | Shell | 88 | 3 | # export PYTHONPATH=$(cd "$(dirname "$BASH_SOURCE:-$0")"; pwd)
export PYTHONPATH=$(pwd) |
76b69563c48ed4df97b60cd9d7a586bad2f0cf1f60b908982c46c4ae90419b24 | Shell | 88 | 2 | #!/usr/bin/env bash
make clean ; make html --debug --jobs 2; make html --debug --jobs 2
|
2edf7d68201f47345eb97ec4473ef6c9774a413a57df5078fab4f31694c37bf5 | Shell | 89 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_*.ps; do
sbatch $job
done
|
e0d67f73ffc05524009d088b341f317690091d9ba013e547513b21b86c0a7cae | Shell | 89 | 6 | #!/bin/bash
for file in gpu_job_*.yaml; do
kubectl apply -f "$file"
sleep 5
done |
8a3d58aa02884a193236544c806c1b86cafcbe466250499fa761423b94b8f277 | Shell | 90 | 2 | #!/bin/bash
bazel query //... | grep -i -e "//projectmetis/controller" | xargs bazel build |
07d163834b6a073fdda151a71e661ee30c5c1035a649684bc850da71436a2c10 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_6_*.ps; do
sbatch $job
done
|
1f59bb4e9c8fce38b72b00a5962bf21024f62f86ee5ace27a7c4e9ad912ab442 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_9_*.ps; do
sbatch $job
done
|
27b2305422215956e8b4ccc973ec9c32af06923d32bca67bb3761bd8a541722e | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_1_*.ps; do
sbatch $job
done
|
3104b28a34a13f2b781463ec465681820ca367b2c28542749c192bf04d573053 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_3_*.ps; do
sbatch $job
done
|
3c82fa0d15e80e4c60f66d74f82cc66d95eac039be9f2442101995fb40bdee8f | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_4_*.ps; do
sbatch $job
done
|
8e99bdea424cd221fceb2d59287aab9220ffea4d80d782d2300eb7f232892ae1 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_2_*.ps; do
sbatch $job
done
|
961a80da86fffaebfa802c6916a63d340521230b2d74ab73122d6f0fe44edb33 | Shell | 91 | 1 | geometric-optimize --engine openmm --pdb ZINC00107778.pdb ZINC00107778.xml constraints.txt
|
a7bda0afd82a3ad359e4f5fa5ebb8c00ea3ac3d76fe3a152db019dc674d8f740 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_5_*.ps; do
sbatch $job
done
|
dd7d85f030d571760b5a724832e881a845482d8f40249cd6016b03286afbe317 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_8_*.ps; do
sbatch $job
done
|
fd73a4b57f99c6100129aba30a53f19f76071988c9e25cc01140bfeb71bb0205 | Shell | 91 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_7_*.ps; do
sbatch $job
done
|
0f30a0e176c97ec693cefff4348ff91a52eccd6768bc5bbc01127221a71208a4 | Shell | 92 | 1 | python val_custom.py --weight data/best_model_epoch4675.pth --dataPath ../data/DM4/testing/
|
1020801015435c96f50bdfae47200701cca980161dd69fd4d5d9b69202ff580d | Shell | 92 | 6 | #!/bin/bash
#jobs=($(ls shamu_*.ps))
for job in ml_min_shamu_10_*.ps; do
sbatch $job
done
|
547143e8af0293301f4b8f499aba0e49c548c8706f67c5d02406b2f2d8cf2c48 | Shell | 93 | 2 | show-coords -lcr aln.delta > show_coords.txt
show-coords -lcr aln.1delta > show_coords.1.txt
|
0f7fce83a96e6c48bcb2612b377f348e9afbcad9675320393f9c7ebdcea7db43 | Shell | 98 | 4 | #!/bin/bash
mkdir -p allen_movies
qcopy /mnt/qb/bethge/jlee/cl-neural/allen/movies/ allen_movies
|
3cc6a21f3b2a50b41ed8333daf1e68a5cc0a270bce5892b1cab57fd96de40d43 | Shell | 98 | 7 | #! /bin/bash
Rscript NB10_varyCoembedMethods.R --sampleRNAname $1 --geneActiv $2 --numPCs $3
|
63a614b8ebab9274b227574e103f4820ccce67409ebc807059cda395d2ae824d | Shell | 105 | 1 | mummerplot aln.1delta -R transcripts_chr1_chr9_rev.fa -Q transcripts_chr1_chr9.fa -p paralog_mummerplot
|
4475d671950030e602b5b205ba2edadde78550dbb6015608ee89932d71b4ef87 | Shell | 106 | 2 | python train_custom.py --exp dm_new_net_addBN --epochs 5000 --batch_size 10 --base_lr 0.0001 --workers 8
|
7c14a379b8d1b3e2ab4fce62ea742b4607f8794bc9ffde633ae78a0aa32b0f82 | Shell | 106 | 5 | module purge
module load modules-nix
module load nix/gcc
module load intel/compiler
module load intel/mkl
|
f034672b234e13c840647bfa8026c85d62fdd44768aa4b8e072361e1d833faf8 | Shell | 106 | 4 | #!/usr/bin/env bash
THIS=$(cd $(dirname ${BASH_SOURCE[0]}) && pwd)
nosetests -v $THIS/test_functional.py
|
b071cd8d1fec577089118ecd7e5b19dd0f206b138ea2089b9d5b01afd02d6393 | Shell | 107 | 4 | rm -rf print_testres.txt
./int2-test-emfmm3d
mv print_testres.txt ../../print_testresem.txt
rm -rf fort.13
|
be3b4b15f1493ddfef36941c9bdb70afdc78892484fc2fc0f01428f6b89e5321 | Shell | 108 | 1 | python splam_predict.py -f tmp_out_alignment/juncs/junction.fa -o score_tmp.bed -m ../model/splam_script.pt
|
89934399693f7f2f978a3786f64b8785d92e87ebd55db5e3727d6621c9417f3a | Shell | 109 | 4 | #!/bin/bash
# Parses the cebra version
sed -ne 's/.*__version__.*"\([0-9a-z\.]\+\)"/\1/p' cebra/__init__.py
|
518bf79dcc11fce28a04f62b3e2625a85e170af5e29aa6991a6633b65b21bfbb | Shell | 115 | 2 | bash /homes/liu3zhen/scripts2/miniC/miniscan/miniscan -f testdata/test.fasta -o testoutput -w 100000 -s 100000 -x
|
1ba4b7ad37806f283c88bf432c2d5f55cc45e4c1ef3d1894d1e31eb34124e630 | Shell | 116 | 7 | #!/bin/bash
set -exuo pipefail
export RAY_DEBUG_BUILD=deps-only
uv build --wheel --directory python/ -o ../.whl/
|
91758c79feb555110c4642d6b0be2a08a840c9cae7050497ba944842b3cb4a09 | Shell | 116 | 2 | #!/bin/bash -ue
make_sample_sheet.py --run_directory /net/shendure/vol9/seq/NEXTSEQ/220110_NS500488_1276_AH23G5BGXL
|
dbc2ce0629d53b1bb0b688bda95e538baa98a73498348062d5b3949e398c9559 | Shell | 116 | 4 | #!/bin/bash
source /opt/conda/etc/profile.d/conda.sh
conda activate snakebids-env
exec /src/hippunfold/run.py "$@"
|
2fb08da687f80894c5858df1c56c7c5de401c2a7e7e967da3b6666e07f2f0e00 | Shell | 117 | 6 | #!/bin/bash
#cat checksums.md5 | parallel -j4 --pipe -N1 md5sum -c
ls *fastq.gz | parallel -j4 fastqc {}
multiqc .
|
deadaeac493a4bff57e40773cb2d8e56bd16ccac9912eeaf46fb2564e595af3c | Shell | 117 | 1 | mvn install:install-file -Dfile=lib/jchem3.jar -DgroupId=chemaxon -DartifactId=jchem -Dversion=3.0.0 -Dpackaging=jar
|
cdc72b88927b8dad1ce541b50d7f77d19753531b8c0905bdd78adb36ea6c2294 | Shell | 120 | 3 | for ((i = 1; i < 23; i++))
do echo "svimmer vcf_list_union chr$i > chrs_union/$i.vcf" | qsub -V -cwd -l h_vmem=60G
done
|
1d2f4e77043e32e1d7f52d444bc0ad746bc270cf77d9371714eb36c52de054a7 | Shell | 122 | 4 | #! /bin/basn
Rscript /net/trapnell/vol1/home/readdf/trapLabDir/hubmap/results/2021_07_24_ciceroWork_nobackup/useCicero.R |
407909da095c49c2f6c7e9a8cf8365bc1b9bcc7c3d21510f7a26d437b8442590 | Shell | 122 | 4 | #!/bin/bash
source /opt/conda/etc/profile.d/conda.sh
conda activate snakebids-env
exec /src/hippunfold/run_quick.py "$@"
|
9d86ca0162f20ed8676eff1693083837b82bb29989c753a452b8d24e56d41e93 | Shell | 122 | 4 | #!/bin/bash
UKB_bim=ukb_eur_unrel_comb
plink --bfile ${UKB_bim} --score ./score_sum.txt 2 4 6 sum --out ./score_sum_indiv |
884b472bd7bc597282b400b993433c75a73963af85b6c0d7dd6edb73bc495847 | Shell | 126 | 2 |
python -u PDB_coord_seq.py --sample_list_file sample_list.txt --pred_pdb_dir ./pdb --true_coords_hdf5 example_sample_data.h5
|
8f874b239bf092a472e3360bce9d346f10afd3549e81be6dc2fd0823d91f2f8d | Shell | 126 | 4 | #! /bin/basn
Rscript /net/trapnell/vol1/home/readdf/trapLabDir/hubmap/results/2022_04_04_redoCiceroWork_nobackup/useCicero.R |
2c9987fe1a2a5edc75e2ae30bf87f66b0a5d0a266fdb378d6bb7259d77fb1edf | Shell | 127 | 1 | bedtools intersect -v -a d_a.bed -b ../../../../../src_tools_evaluation/remove_paralogs/paralogs.bed > d_a_paralog_removed.bed
|
3a8ef0806460eb98cc14f3b9c4ee270baf60210381a599a763d86ab3d3394364 | Shell | 129 | 1 | awk '$3 == "transcript"' ../../Dataset/refseq_GCF_000001405.40_GRCh38.p14_genomic.gff > ../../Dataset/refseq_all_transcripts.gff
|
5f84300da7d7c4ba125c2414d712d1db8fd18eb66d6cdf6225f4e345d034886c | Shell | 129 | 4 | #! /bin/bash
Rscript /net/trapnell/vol1/home/readdf/trapLabDir/hubmap/results/2022_09_02_DE_Testing_nobackup --cellType $1
|
1178686771e58ca35ae6ba7d5bf002a5a64c1503635afc628e28aa5586bd0c60 | Shell | 130 | 7 | #!/bin/sh
for f in $(ls *.ipynb); do
for fmt in markdown html; do
python -m jupyter nbconvert --to=${fmt} $f
done
done
|
491c949748cbb1cff975135b1e2fa01cba55a5e18646a308f081764c6e531c9c | Shell | 133 | 4 | #!/usr/bin/env bash
PILON_JAR=/media/VD_Research/Admin/PBS/Software/ngs_mapper/pilon/pilon-1.23.jar
java -Xmx50G -jar $PILON_JAR $@
|
e2c81b21701f6659ea125bf884f537f08bb8d27778fc9a23d7569a159c8ea95a | Shell | 133 | 5 | rm -rf print_testres.txt
./int2-test-stokkernels
./int2-test-stfmm3d
mv print_testres.txt ../../print_testresstok.txt
rm -rf fort.13
|
61af5449ffae0fef7316294d60c297b5c1583cfdc9721be3d3a24521f6fe78c7 | Shell | 138 | 4 | python setup.py build develop
# or if you are on macOS
# MACOSX_DEPLOYMENT_TARGET=10.9 CC=clang CXX=clang++ python setup.py build develop |
33b5bf28f297be58e975723ad41be19077746f492159fbde7a62f7649ee6742d | Shell | 139 | 3 | cd ..
CUDA_VISIBLE_DEVICES=4,5 python train.py --exp AttanetRN18 --epochs 5000 --batch_size 10 --base_lr 0.0001 --workers 8 --net Attanet
|
89d672ff541f5fef8866b03c786d780c2bacdf7b6be300a8faeb52971561ed91 | Shell | 139 | 3 | data_path=./20211117/ #PLEASE CHANGE
sudo docker run -it --ipc=host --gpus all -v $PWD:/media -v $data_path:/data dm_project /bin/bash
|
8e3aae0c6f6b91fe759c844635282c54781227aaccffb24a18c862e8721704e7 | Shell | 140 | 4 | #!/usr/bin/env bash
THIS=$(cd $(dirname ${BASH_SOURCE[0]}) && pwd)
nosetests -v --nologcapture -a '!slow' -I '.*test_functional.py$' $THIS
|
b9740f4626aea6773890d6949c7830dbedd7d085d239b36244a280c917a176e0 | Shell | 140 | 4 | #!/bin/bash
KoGES_bim=KCHIP.snp.imputed.HRC.rsID.rmdup
plink --bfile ${KoGES_bim} --score ./score_sum.txt 2 4 6 sum --out ./score_sum_indiv |
9e911b6ce8f6463e063c0c23893175e578afeef3d369d06c2a0aa3b0893342e9 | Shell | 144 | 4 | echo "Updating the drprobe_clt Linux binary archive"
rm "drprobe_clt_bin.linux.tar.gz"
tar cvzf "drprobe_clt_bin.linux.tar.gz" "bin"
echo Done.
|
51cd15ebe968e3503a2390efcdcbc1c0187dec86df5fa9b770ab0710f1fb9015 | Shell | 146 | 1 | diff-pdf --output-diff=lala.pdf -v --dpi=300 --channel-tolerance=0 -g outputs/singularity_20230908122618/article.pdf outputs/original/article.pdf
|
c4846678109130ca1f97e309f8e545961314ccb40d6f74ef7259a94fe3fff396 | Shell | 148 | 2 | ifort -c -lstdc++ -fPIC -O3 *.f # compile all of the .f files to produce .o files
ar rv libblas.a *.o # combine the .o files into a library
|
ad7a1022afdec553959cf7d876fa051f8395d79b618c8e7277254a267a67f8bb | Shell | 151 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_1_agent
conda deactivate |
40e7f972dd7a77e5296bb009a82e635ddd53843a4bbba5eaa96809a93168ada1 | Shell | 158 | 3 | cd ..
CUDA_VISIBLE_DEVICES=0,1 python train.py --exp SFSegNet_df2 --epochs 5000 --batch_size 10 --base_lr 0.0001 --workers 8 --net SFSegNet --backbone 'df2'
|
6aaacf6cf18680e0b109a07cf59586d6b56dbfb19195572086fe799f28fb9827 | Shell | 158 | 3 | bash xavier_test_speed_formal_ablation.bash > ignored/speed_test_ablation.txt
bash xavier_test_val_formal_ablation.bash > ignored/accuracy_test_ablation.txt
|
465977b39e118b48ad7b9973f3cbff21bda90112396efd2a87de866e4b03f113 | Shell | 159 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_2_sentence_mgmt
conda deactivate |
6da340e5c0447a0e46ab5210c221b5bd7c138c2bc757fa8bf7c77f9cb56c6ab0 | Shell | 159 | 2 | awk '{if ($10 > 80 && ($16 > 50)) {print}}' show_coords.txt > show_coords_paralogs.txt
awk '{ print $19 }' show_coords_paralogs.txt > show_coords_paralogs.bed
|
addc5c9acad002c1f65b4a80c1471178272ed39107d998e59270f0dddd616425 | Shell | 159 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_6_spo_extractor
conda deactivate |
171e9108bfb55e6b5dc7e3664bd9966257851c963651c9d9a70f88866cdadcba | Shell | 160 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_4_cw_classifiers
conda deactivate |
05bf2fe7c385c4ecb2245183c1e842f3fc0d17db0a5e78c4d0515ec76e22c89b | Shell | 161 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_8_fc_classifiers
conda deactivate
|
ec7e7292937dad504ea701c905a7f6f9384876a232044114400f34981ced3397 | Shell | 161 | 11 | #!/bin/bash
if [ "${TRAVIS_BRANCH}" != "develop" ]
then
echo "Not develop branch. Skipping"
exit 0
fi
set -e
.travis/in_commit.sh CHANGELOG.rst docs/
|
3bb8bc7345d48bef334bb30a67d2dd348c27dfef9919f8595535b908231fb992 | Shell | 162 | 3 | bash xavier_test_speed_formal_benchmark.bash > ignored/speed_test_benchmark.txt
bash xavier_test_val_formal_benchmark.bash > ignored/accuracy_test_benchmark.txt
|
5d47074dcbe5d63b2c7f3d26f25657cf34a01d6fab60a1322e4d0a65462b9381 | Shell | 162 | 8 | #! /bin/bash
docker run \
-i -t --rm \
--platform linux/amd64 \
--user $(id -u):$(id -g) \
-p 8080:3000 \
srp33/colorblind_image_tester
|
8baa8215af481174bbbd65d520e4f76c659b0e51a66c16e4b04b808cb63dc7e9 | Shell | 163 | 6 | #!/bin/bash
# 'KAS-Analyzer deactivate' was developed by Ruitu Lyu on 1-25-2022.
conda deactivate
echo "KAS-Analyzer conda environment deactivate successfully!"
|
253eef2d4b724a6b1e421b136ec7329a4e6f562537d575994ccb71e4432d9de5 | Shell | 164 | 3 | cd ..
CUDA_VISIBLE_DEVICES=2,3 python train.py --exp SFSegNet_resnet --epochs 5000 --batch_size 10 --base_lr 0.0001 --workers 8 --net SFSegNet --backbone 'resnet'
|
7087032fc582180736941bb29157a2325533cec44dd4f27a6568bff492ae77b9 | Shell | 165 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_7_update_review_level
conda deactivate |
7e4320c97460572fcd412913fe4936eac1c8433363fdb225b5593618b8649b1e | Shell | 165 | 4 | #!/bin/bash
# Make sure version is changed
git diff $(basename $TRAVIS_REPO_SLUG)/__init__.py | grep -q '^.__version__' || (echo "Version was not updated"; exit 1)
|
b5541cfecd1513d057747dfba6537e7245854fc60b763a140dea94b7b19f4078 | Shell | 165 | 6 | #!/bin/bash
cd /root/vsc/hnfc-dataset-agent/
source /root/miniconda3/bin/activate agent
python -m agent.launchers.hnfc_launch_5_update_review_level
conda deactivate |
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