GenBank/RefSeq Directory Structure
Overview of directories
-
$gbRoot/ - root directory
-
etc/ - configuration files and scripts
-
data/ - data files
-
download/ -
downloaded files from NCBI ftp
genbank.${ver}/
genbank.${ver}/daily-nc/
refseq.${ver}/cummulative/
refseq.${ver}/daily/
-
processed/ -
data extracted from the NCBI flat-files
-
genbank.${ver}/
-
refseq.${ver}/
-
aligned/ -
aligned sequences
-
var/build/ - files associated with download and build
steps. Only on build server
run/ - semaphore files
logs/ - log files
build.time - File contain the time that the
last download and alignment steps completed, in seconds since
00:00:00 1970-01-01 UTC. This is used by process running on
other systems to poll for completion.
-
var/copy/ - files associated with copying to the
gbdb server.
run/ - semaphore files
logs/ - log files
build.time - copy of
build/build.time from the last completed
copy.
copy.time - file containing time last
copy completed.
-
var/dbload/$host/ - files associated with that last
database load on database server $host.
run/ - semaphore files
logs/ - log files
copy.time - copy of
copy/copy.time from the last completed
copy.
load.time - file containing time last
load completed completed.