Mitch Stanton-Cook @Bio_mscook
[Professional account] Operational Bioinformatician. Focused on reproducibility & productivity. Views are mine alone. Personal account is @mscook beatsonlab.com/pages/MitchSC Yelling behind my keyboard Joined May 2015-
Tweets39
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Followers114
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Following274
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Likes5
Fail - when the chair at your coworking space is better than your chair at your workplace.
Since moving from Vim to Atom I would say the biggest problems I have are finding 'i' scattered throughout my code and constantly hit ESC.
9) The Virtual Cluster Resource. CAAS == cluster as a service. Yep. Virtual. Possibly imaginary. Competing with 6), 7), 8) and 9). the END!
8) Galaxy Queensland - 10X/fullstack bioinformatician here. Note. 6), 7) & 8) are all competing for the same limited cores! Engineering 101
7) Use the Genomics Virtual Laboratories. Because true 10x/fullstack bioinformaticians can used the cloud and galaxy!
6) Use NeCTAR and own your own cloud. 30 000 core nationally. QRIS has 4000 which are likely over allocated or idling...
5) Use Flashlite. Fleshlite is not a general purpose computer, nor a replacement for the majority of the workload of Barrine.
4) Use other Institutional HPC Systems, like QUT, Griffth, JCU etc. No sandstone there but there is compute. Ranking not based on compute!
3) Write NCI-MAS applications for Other NCMAS Affiliated Facilities (MASSIVE/Pawsey/VLSCI). That is, don't use UQ stuff!
2) Move to NCI Peak Facility (Raijin). It's probably not really suited to bioinformatics data/workloads.
1) Announce barrine is going. Wait, barrine fights on until at least the end of 2015.
"A transitioning from barrine the play" - Playwright Mitchell Stanton-Cook. 9 scenes -
Mitch Stanton-Cook retweeted
Victoria takes lead in addressing Australia's growing need for #bioinformatics expertise & talent. ow.ly/NwMJu @VlsCi
ete2 (PyQt4 fucker) and lack of MAFIO native support in Biopython work around scripts coming to a gist near you!
Ohh. It has been so long since I worked on this project I spent an 1/2 a day dealing with shit I got angry about last time (but solved)!
I don't care how awesome ete2 is. If ete2's (python) dependencies can't be pip installed you go straight into the POS pile!
Dear @BRAEMBL - do you guys still exist? I just had a email bounce and I couldn't find any News/info on braembl.org.au
Even better. tbl2asn updated. Error: SHA256 mismatch. Really bad practice @NCBI not to include version number in a package download !!!
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54K Followers 286 Following A leading peer-reviewed genomics journal. Mastadon: https://t.co/v31waKv6mB Bluesky: https://t.co/tjRPsmnyT5 Submit: https://t.co/6vTemDJxKG
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