zorbax

! 2022-09-20 https://www.r-bloggers.com
||www.r-bloggers.com/wp-content/uploads/2022/07/earl2022_agenda-1.*$image
www.r-bloggers.com###text-18 > .textwidget > div

! 2022-09-28 https://www.programiz.com
||cdn.programiz.com/sites/all/themes/programiz/assets/programiz-pro-bts-sale-pop-up.png$image
@@||dailymotion.com^$ghide

! https://youtube.com
www.youtube.com##ytd-guide-renderer a.yt-simple-endpoint path[d^="M10 14.65v-5.3L15 12l-5 2.65zm7.77-4.33"]:upward(ytd-guide-entry-renderer)

zorbax

import json
import time
from pathlib import Path

from bs4 import BeautifulSoup as bs
from selenium import webdriver
from selenium.webdriver.chrome.service import Service

with open(Path.home() / "ysblf.txt", "r", encoding="utf-8") as file:
    ysblf_links = file.read().split()

zorbax

#!/usr/bin/env python3

from Bio.Blast.Applications import NcbiblastnCommandline
import pandas as pd

cline = NcbiblastnCommandline(query='insulin.fasta', remote=True, outfmt=6, out='-')
output = cline()[0].strip()

rows = [line.split() for line in output.splitlines()]
cols = ['qseqid', 'sseqid', 'pident', 'length',

zorbax

REMOTE

1a. Create a conda environment for R and Julia to avoid conflict with local installation

conda install -yc conda-forge mamba

mamba create -n jupyteR -yc r -c conda-forge \
    r-essentials r-base ipykernel jupyterlab r-irkernel

zorbax

# macOS

cd ~/.ssh
ssh-keygen -f ~/.ssh/id_rsa_github -t rsa -C "[email protected]"

ssh-add ~/.ssh/id_rsa_github

# ssh-add -l

# Add the key to Github

zorbax

# MiSeq
bcl2fastq -R . -r 10 -p 10 -w 10 \
    --fastq-compression-level 9 \
    --barcode-mismatches 2 \
    -l NONE -o fastq_files \
    --sample-sheet SampleSheet.csv

# Nextseq
bcl2fastq -R . --no-lane-splitting \
    -r 10 -p 10 -w 10 \

zorbax

# Backup conda environments
envs=$(conda env list | awk -e '$0 ~ /^\w/ {print $1}')
for env in ${envs}
do
  source activate ${env}
  conda env export > ${env}.yml
  conda deactivate
done
 
# Restore conda environments

zorbax

[credentials]
token = 123456:ABCDEF1234ghIkl-zyx57W2v1u123ew11

zorbax

# Install current version from CRAN:
# https://cran.r-project.org/bin/macosx/R-4.0.0.pkg

# Get which version of R a package was built with
pkgs <- as.data.frame(installed.packages(), stringsAsFactors = FALSE, row.names = FALSE)
pkgs[, c("Package", "Version", "Built")]

# Update packages, source instead binary for MacOS
update.packages(ask = FALSE, checkBuilt = TRUE, type = 'source')

zorbax

;# getopts.pl - a better getopt.pl

;# Usage:
;#      do Getopts('a:bc');  # -a takes arg. -b & -c not. Sets opt_* as a
;#                           #  side effect.

sub Getopts {
    local($argumentative) = @_;
    local(@args,$_,$first,$rest);
    local($errs) = 0;