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Set up tunnel:

 ssh -L 1443:clusternode-xcc:443 adminuser@adminhost

Then, run web browser on PC connecting to

https://localhost:1443

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Oh My Zsh tips

• To see all 256 possible colors and their IDs:
  • spectrum_ls
  • spectrum_bls
• for i in {0..255}; do print -Pn "%K{$i} %k%F{$i}${(l:3::0:)i}%f " ${${(M)$((i%6)):#3}:+$'\n'}; done

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HOWTO build NCI-GDC/gdc_client

Notes on building https://github.com/NCI-GDC/gdc-client

Issue

Following their instructions, get error in building lxml Python package:

Building wheels for collected packages: lxml
  Building wheel for lxml (setup.py): started

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• Assume
  • OpenBLAS installation location given by environment variable OPENBLAS_DIR
    • $OPENBLAS_DIR/include
    • $OPENBLAS_DIR/lib
  • OpenBLAS copiled with dynamic arch, i.e. architecture determined at runtime:
    • Edit Makefile.rule to set: DYNAMIC_ARCH=1
    • Or just do make DYNAMIC_ARCH=1 to build
• Configure line

./configure --prefix=/my/local/opt/R/$version \

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

# some of the User_Aliases lines contain buggy usernames 
# which have "a" at the end of the username

broken_usernames = set()

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mkdir bin
find . -not -type d -and -not -path '*/\.git/*' -exec git mv {} bin \;

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TIL
- tree [dirname] : shows an ASCII-formatted tree of directory *dirname*

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python3 -c 'import crypt,getpass; print(crypt.crypt(getpass.getpass(), crypt.mksalt(crypt.METHOD_SHA512)))'

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Random Grid Engine tips and tricks

The following work with Son of Grid Engine (SGE) 8.1.9 as configured on the University of Sheffield's ShARC and Iceberg clusters.

Jobs with dependancies

You can use the -hold_jid <<job-name or job-name>> option to make jobs run only when other jobs have finished, rather than having jobs start and sit waiting for other tasks to complete.

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#! /usr/bin/nft -f

### localhost
define LOCALHOST = { 127.0.0.1 }
define LOCALHOST6 = { ::1 }

table inet filter {
    chain input {
        type filter hook input priority 0; policy drop;
        ct state invalid counter drop comment "early drop of invalid packets"