Very nice, thank you!
On Fri, Jun 10, 2022 at 4:18 PM Malcolm Cook wrote:
> I just finished successful install on CentOS7 with the following notes:
>
> https://github.com/malcook/tpp_sandbox/blob/main/tpp_install_centos7.org
>
> I hope it might help someone else
>
> On Monday, October 12,
I am unable to reproduce this error when I download and run the tutorial on
my windows or linux (ubuntu) machines with this tutorial data. Perhaps you
can confirm that the fasta file you have is not getting corrupted somehow
during your download or processing. Thanks.
-David
On Fri, Jun 10,
Hi Luis,
Yeah, I quickly got used to it but thought it worth pointing out. It only
had me confused for a moment, as I say.
On Friday, June 10, 2022 at 5:45:11 PM UTC-5 Luis wrote:
> Hi Malcolm,
> Thanks for the feedback. In this specific case, the page auto-updates the
> big status box,
I just finished successful install on CentOS7 with the following notes:
https://github.com/malcook/tpp_sandbox/blob/main/tpp_install_centos7.org
I hope it might help someone else
On Monday, October 12, 2020 at 11:02:33 PM UTC-5 Eric Deutsch wrote:
> You can get a recipe for using TPP with
http://tools.proteomecenter.org/wiki/index.php?title=TPP_6.1.0:_Installing_on_Ubuntu_20.04_LTS#Testing_the_installation_with_a_sample_dataset_.28optional.29
On Friday, June 10, 2022 at 3:47:16 PM UTC-5 David Shteynberg wrote:
> Which specific tutorial are you attempting so I can try to
Which specific tutorial are you attempting so I can try to reproduce
the issue?
Thanks,
-David
On Fri, Jun 10, 2022 at 11:14 AM Malcolm Cook
wrote:
> Thank you. I concur deleting those characters resolves the issue.
>
> My colleague Gabriel actually was running the tutorial test. I will
(note: my location for data is not the suggested in the install guide. I
did not use `/data` but `/data/tpp`.)
On Friday, June 10, 2022 at 3:37:27 PM UTC-5 Malcolm Cook wrote:
> I discovered the issue. I believe you have a bug.
>
> In my hands, when the fasta deflines in Yeast_UPS_cRAP.fasta
I discovered the issue. I believe you have a bug.
In my hands, when the fasta deflines in Yeast_UPS_cRAP.fasta are longer
than 120 characters they get truncated and a non-breaking space appended.
Running the demo pipeline runs to completion if I first fix this problem
with:
*sudo -u apache
Thank you. I concur deleting those characters resolves the issue.
My colleague Gabriel actually was running the tutorial test. I will ask
him to chime in if he did anything other than follow the steps given.
On Friday, June 10, 2022 at 12:03:08 PM UTC-5 David Shteynberg wrote:
> Hello
Hello again Malcolm,
There are several of these non-ascii characters in the protXML file that
you sent. After I removed them I was able to open the file in
ProtXMLViewer. Also the syntax errors from tpp2mzid went away (although I
wasn't able to convert your file without the associated pepXML
Hi Malcolm,
The message is complaining about line 148 of the pepXML file which look
like this:
Apparently this protein entry in your database has a non-ascii character in
the descriptions of this protein. Can you please share this database so I
can examine this protein entry or can you check
I just got TPP installed and am trying to [test the installation with a
sample dataset](
http://tools.proteomecenter.org/wiki/index.php?title=TPP_6.1.0:_Installing_on_Ubuntu_20.04_LTS#Testing_the_installation_with_a_sample_dataset_.28optional.29
)
I am getting an error with tpp2mzid parsing
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