Phylografter timing-out on large datasets

[chrsowen]

I am having trouble uploading large phylogenomic data sets from treebase studies. When I try to upload these using phylografter, I get the error message, 'valid study id required'. I contacted treebase help and they said the studies look good and the issue is probably due to phylografter. I have a list of ~20 of these troublesome studies. Below are example treebase study id numbers for 3 of these studies.

Thanks for your help,
Chris

Study IDs: 13990, 12156, 12742

[blackrim]

The first one on the list doesn't have many taxa, is it importing all the
gene trees? I don't imagine so because there are only a dozen trees in the
treebase sample. Is it hiccuping because it is trying to import the actual
data matrix perhaps?

On Tue, Jun 11, 2013 at 9:26 AM, chrsowen [email protected] wrote:

I am having trouble uploading large phylogenomic data sets from treebase
studies. When I try to upload these using phylografter, I get the error
message, 'valid study id required'. I contacted treebase help and they said
the studies look good and the issue is probably due to phylografter. I have
a list of ~20 of these troublesome studies. Below are example treebase
study id numbers for 3 of these studies.

Thanks for your help,
Chris

Study IDs: 13990, 12156, 12742

—
Reply to this email directly or view it on GitHubhttps://github.com//issues/61
.

[rhr]

Not import the data per se, but it parses the data from the nexml. I
suppose the best thing is to have phylografter skip the data blocks for now.

On Tue, Jun 11, 2013 at 8:32 AM, Stephen Smith [email protected]:

The first one on the list doesn't have many taxa, is it importing all the
gene trees? I don't imagine so because there are only a dozen trees in the
treebase sample. Is it hiccuping because it is trying to import the actual
data matrix perhaps?

On Tue, Jun 11, 2013 at 9:26 AM, chrsowen [email protected]
wrote:

I am having trouble uploading large phylogenomic data sets from treebase
studies. When I try to upload these using phylografter, I get the error
message, 'valid study id required'. I contacted treebase help and they
said
the studies look good and the issue is probably due to phylografter. I
have
a list of ~20 of these troublesome studies. Below are example treebase
study id numbers for 3 of these studies.

Thanks for your help,
Chris

Study IDs: 13990, 12156, 12742

—
Reply to this email directly or view it on GitHub<
https://github.com/OpenTreeOfLife/phylografter/issues/61>
.

—
Reply to this email directly or view it on GitHubhttps://github.com//issues/61#issuecomment-19261615
.

[hdliv]

I still have a timing issue looking at more than 25 OTUs at a time. Is there development on this?
Thanks