prehensilecode

python-lsp-server
importmagic
epc
pycodestyle
mccabe
pyflakes
pylint
rope
yapf
ipython

prehensilecode

#!/usr/bin/env python
import sys
import os
import numpy as np

text = [[4, 3, 8, 9, 5, 1, 2, 7, 6], [8, 3, 4, 1, 5, 9, 6, 7, 2],
        [6, 1, 8, 7, 5, 3, 2, 9, 4], [6, 9, 8, 7, 5, 3, 2, 1, 4],
        [6, 1, 8, 7, 5, 3, 2, 1, 4], [6, 1, 3, 2, 9, 4, 8, 7, 5]]

text = np.array(text)

prehensilecode

#!/bin/bash
module use /ifs/opt/modulefiles
module load python/gcc/3.9.1
module load ncbi-blast

### About the db sources:
### - ncbi provides .tar.gz files, which need to be extracted
### - gcp and aws provide all the db files directly

logfile=/var/log/blast.log

prehensilecode

@font-face {
  font-family: 'Meslo LG';
  src: url('https://github.com/powerline/fonts/raw/master/Meslo%20Slashed/Meslo%20LG%20M%20Regular%20for%20Powerline.ttf') format('truetype');
  font-weight: normal;
  font-style: normal;
}

prehensilecode

#!/usr/bin/env python3
import sys
import os

print('hello, world')

prehensilecode

#!/usr/bin/env python3
import sys
import os
import csv
import argparse
import pathlib

parser = argparse.ArgumentParser()
parser.add_argument('-d', '--debug', action='store_true', help='Debug')
parser.add_argument('-i', '--infile', type=argparse.FileType('r'), help='CSV file from LISTSERV')

prehensilecode

NGS

• Documentation: https://github.com/ncbi/ngs/wiki/Building-and-Installing-from-Source
• This contains:
  • DEPRECATED ngs-bam
  • ngs-java
  • ngs-python (optional)
  • ngs-sdk

Modules:

• gcc/9.2.0

prehensilecode

#!/usr/bin/env python3
import sys
import os
from pythoncm.cluster import Cluster
from pythoncm.settings import Settings
from pythoncm.entity import *

debug_p = False

cluster = Cluster()

prehensilecode

#!/usr/bin/env python3.6
import numpy as np
import tensorflow as tf

# Mash-up of:
# - https://stackoverflow.com/a/49497004
# - https://ml-with-tensorflow.info/2017/03/01/svm-with-tensorflow/

X = np.zeros([157, 128])
Y = np.zeros([157], dtype=np.int32)

prehensilecode

#!/bin/bash
awk '{print $1, "slots=" $2, "maxslots=" $2}' ${PE_HOSTFILE} > myhostfile.${JOB_ID}