Question: Annovar Check Version Database
0
gravatar for guipagui
2.5 years ago by
guipagui10
guipagui10 wrote:

Hi, I would check if my database of annovar is up-to date. This link show the date of the last update Annovar download

How can i do it ? without download the last database and compare it with the version use ? How print the creation's date of my database ? Thanks a lot.

database annovar • 1.1k views
ADD COMMENTlink modified 2.4 years ago by bioguy24190 • written 2.5 years ago by guipagui10
0
gravatar for bioguy24
2.4 years ago by
bioguy24190
Chicago
bioguy24190 wrote:

In the humandb folder there is a annovar_downdb.log that will show the version of the database download.

Please note that this will only show the version of the database being downloaded, so it must be checked for each time after it completes.

You can also use

 perl annotate_variation.pl -webfrom annovar -downdb avdblist -buildver hg19 .

to get a list of all db versions.

Hope this helps :).

ADD COMMENTlink written 2.4 years ago by bioguy24190

Hi, I didn't know the file "annovar_downdb.log". But i search a command for get dynamically the version of database. However i guess this task isn't possible....

ADD REPLYlink written 2.4 years ago by guipagui10

You could use the command above and that would return a file with all the hg19 databases. From there you could visually compare or maybe even have a script do it (I am trying to do the later, but have just begun).

ADD REPLYlink written 2.4 years ago by bioguy24190

Yes of course. I think "diff" can do this. I hope command as :

perl <perl script=""> <file db="">(ex : refgene) -v | --version

ADD REPLYlink written 2.4 years ago by guipagui10
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