Krona updateAccessions.sh

[k_a_r_o_l]

Hello,

I am trying to do updateAccessions.sh in Krona. Unfortunately during that process (sorting) I don't have enough space in /tmp so everything stops.

Do you have any tips how to run this process avoiding tmp standard directory or running it with temporary "new" tmp directory?

thx

[k_a_r_o_l]

OK. I've found a solution. In a script accession2.taxid.make change the line:

SORT := grep -v accession | sed 's/\.[[:digit:]]*//' | LC_ALL=C sort
to
SORT := grep -v accession | sed 's/\.[[:digit:]]*//' | LC_ALL=C sort -T /home/DIR

As a DIR put any directory with enough space.