Sam’s Notebook:DNA Received – Sea lice DNA from Cris Gallardo-Escarate at Universidad de Concepción

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Received Caligus tape DNA – two samples:

  • Female 1 .
  • Female 2 .

Stored in slots H4 and H5 in “Sam’s gDNA Box #2″ in the FTR 213 -20oC freezer.

Google Sheet: Sam’s gDNA Box #2

20180523_sea_lice_dna.jpg

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Sam’s Notebook:Software Installation – RepeatMasker v4.0.7 on Emu/Roadrunner Continued

0000-0002-2747-368X

After yesterday’s difficulties getting RMblast to compile, I deleted the folder and went through the build process again.

This time it worked, but it did not put rmblastn in the specified location (/home/shared/rmblast).

This fact took me a fair amount of time to figure out. Finally, after a couple of different re-builds, I ran find to see if rmblastn existed somewhere I wasn’t looking:

20180523_rmblast_install_01.png

Additionally, I couldn’t find the location of the various BLAST executables. Some internet sleuthing led me to the NCBI page on installing BLAST+ from source, which indicates that the executables are stored in:

 ncbi-blast-VERSION+-src/c++/ReleaseMT/bin/ 

How intuitive! /s

In order to improve readability and usability of the /home/shared/ directory, I renamed the /home/shared/rmblast directory to reflect the BLAST version and created a symbolic link in that directory to the rmlbastn executable:

Symbolic link to RMBLAST

20180523_rmblast_install_02.png

Initiate RepeatMasker configuration