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Welcome to the user group for the Bioware Server collection of bioinformatic tools, including SLiMSuite (SLiMFinder, SLiMSearch), Cyclops, SLiMPrints, SLiMPred, PeptideLocator and PeptideRanker. This user group is for asking questions related to the use of the tools and development. We will also post updates about server outages, software updates and new manuscripts.

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Jusu J., … Qian Yi Lee3

8/1/19

Hi, I was just wondering if this problem was resolved? I am having the same problem with my protein.

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Hi, I was just wondering if this problem was resolved? I am having the same problem with my protein.

8/1/19

Carlos Vencedor

1/30/18

Local PeptideLocator

Hi, I am interested on running PeptideLocator locally. A collegue sugested that it could be a good

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Local PeptideLocator

Hi, I am interested on running PeptideLocator locally. A collegue sugested that it could be a good

1/30/18

Sean McIlwain, Richard Edwards2

2/24/17

Download SlimSuite?

Yes. Details are at http://slimsuite.blogspot.com.au/. Contact me directly at Richard.edwards@unsw.

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Download SlimSuite?

Yes. Details are at http://slimsuite.blogspot.com.au/. Contact me directly at Richard.edwards@unsw.

2/24/17

Andreas Ioannides

7/12/16

Prediction of SLiMs

Hello all, I'm currently trying to predict possible SLiMs in a number of sequences. What I've

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Prediction of SLiMs

Hello all, I'm currently trying to predict possible SLiMs in a number of sequences. What I've

7/12/16

rim.z...@phystech.edu, Richard Edwards3

4/28/16

SLiMPred in SLiMSuite software package

Dear Rich, thanks a lot for your reply! I'll have a try. Best regards, Rim Zaripov четверг, 28

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SLiMPred in SLiMSuite software package

Dear Rich, thanks a lot for your reply! I'll have a try. Best regards, Rim Zaripov четверг, 28

4/28/16

joaoport...@gmail.com, Denis Shields5

2/13/16

SLiMPred fail to retrieve png/pdf file

Hi Denis, Ok, i will try what you are suggesting and hopefully i will get what i am looking for.

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SLiMPred fail to retrieve png/pdf file

Hi Denis, Ok, i will try what you are suggesting and hopefully i will get what i am looking for.

2/13/16

8/31/15

PeptideRanker not working

I tried running PeptideRanker with the example peptides. It first shows a job in the queue then

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PeptideRanker not working

I tried running PeptideRanker with the example peptides. It first shows a job in the queue then

8/31/15

Dokyun Na, Norman Davey2

8/3/15

SLiMpred does not work.

Hi We've updated the server's operating system and not everything came back up. We're

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SLiMpred does not work.

Hi We've updated the server's operating system and not everything came back up. We're

8/3/15

Alexandre Chenal, Norman Davey2

7/2/15

CPPpred does not work ?

H Alexandre, We are having a bit of an issue with the server at the moment. What URL are you using

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CPPpred does not work ?

H Alexandre, We are having a bit of an issue with the server at the moment. What URL are you using

7/2/15

alza...@vt.edu, Richard Edwards2

4/8/14

Why some jobs keep running forever? SLiMFinder

There does seem to be a problem with the server at the moment. I will try to find out more from the

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Why some jobs keep running forever? SLiMFinder

There does seem to be a problem with the server at the moment. I will try to find out more from the

4/8/14

8/30/13

new rest services on the website

Hi all, We are currently looking for feedback on our new webserver implementation: http://bioware.ucd

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new rest services on the website

Hi all, We are currently looking for feedback on our new webserver implementation: http://bioware.ucd

8/30/13

3/20/13

Hi all, SLiMSearch 1 has been reactivated and is available at the following url: http://bioware.ucd.

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Hi all, SLiMSearch 1 has been reactivated and is available at the following url: http://bioware.ucd.

3/20/13

Salva, Niall Haslam3

2/18/13

Hi Salva, If you have a milk protein for example you could break the sequence into peptides and use

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Hi Salva, If you have a milk protein for example you could break the sequence into peptides and use

2/18/13

1/9/13

We have made two more services available through the rest interface they are PeptideLocator and

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We have made two more services available through the rest interface they are PeptideLocator and

1/9/13

James, Niall Haslam3

11/22/12

Number of sequences in database

Thanks Niall, that's perfect, I just needed to know the total number of proteins. James On

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Number of sequences in database

Thanks Niall, that's perfect, I just needed to know the total number of proteins. James On

11/22/12

11/22/12

orthdb files and data@bioware

Hi all, We will soon be making available data files for the slimsuite tools. A test page is up at:

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orthdb files and data@bioware

Hi all, We will soon be making available data files for the slimsuite tools. A test page is up at:

11/22/12

Niall Haslam, Richard Edwards3

11/16/12

New motif discovery tool - dlocalmotif

If you want to use SLiMFinder to find "local motifs": http://seqsuite.blogspot.co.uk/2012/

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New motif discovery tool - dlocalmotif

If you want to use SLiMFinder to find "local motifs": http://seqsuite.blogspot.co.uk/2012/

11/16/12

11/13/12

Gopher rest api

Hi all, We have a new rest api for accessing the pre-computed gopher alignments on the server. It

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Gopher rest api

Hi all, We have a new rest api for accessing the pre-computed gopher alignments on the server. It

11/13/12

10/30/12

Fwd: new version of gopher web interface

Hi all, There is a new testing version of gopher that has auto-complete for entering in your query

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Fwd: new version of gopher web interface

Hi all, There is a new testing version of gopher that has auto-complete for entering in your query

10/30/12

10/14/12

slimprints error

http://bioware.ucd.ie/~compass/Datasets/slimprints/LD7d3x/LD7d3x.stdout Modeller not installed Q03768

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slimprints error

http://bioware.ucd.ie/~compass/Datasets/slimprints/LD7d3x/LD7d3x.stdout Modeller not installed Q03768

10/14/12

10/10/12

Server's back online

Hi all, The servers should now all be back up and running. The server was up and running yesterday

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Server's back online

Hi all, The servers should now all be back up and running. The server was up and running yesterday

10/10/12

10/8/12

UCD Network down

Hi All, There appears to be a problem with the UCD network - meaning that the bioware server is not

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UCD Network down

Hi All, There appears to be a problem with the UCD network - meaning that the bioware server is not

10/8/12

9/17/12

Hi all, Saamco is now back up and running again. Apologies for the delay and let us know if you

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Hi all, Saamco is now back up and running again. Apologies for the delay and let us know if you

9/17/12

6/15/12

Bioware Downtime

Dear users, The bioware server may be temporarily unavailable today as a result of required

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Bioware Downtime

Dear users, The bioware server may be temporarily unavailable today as a result of required

6/15/12

3/29/12

Comparimotif ELM 2012 update

Hi all, Comparimotif now has updated ELM motif instances for the 2012 ELM release. Available at: http

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Comparimotif ELM 2012 update

Hi all, Comparimotif now has updated ELM motif instances for the 2012 ELM release. Available at: http

3/29/12

Niall Haslam, … Richard Edwards3

3/28/12

If its fast enough, 500 seqs would be good. Rich On 28 Mar 2012, at 19:04, Dav <normandavey@gmail.

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If its fast enough, 500 seqs would be good. Rich On 28 Mar 2012, at 19:04, Dav <normandavey@gmail.

3/28/12

12/9/11

bioware back up

Dear all, I'm pleased to annouce that we are back up and running. The source of the fire has been

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bioware back up

Dear all, I'm pleased to annouce that we are back up and running. The source of the fire has been

12/9/11

12/9/11

bioware server downtime

Hi all, A meeting was held today in UCD to update all concerned about the recent fire in the Daedalus

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bioware server downtime

Hi all, A meeting was held today in UCD to update all concerned about the recent fire in the Daedalus

12/9/11

Niall Haslam, Richard Edwards2

12/8/11

fire at datacentre

Eek! I hope this doesn't inconvenience you too much with the site visit looming. Is the SVN

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fire at datacentre

Eek! I hope this doesn't inconvenience you too much with the site visit looming. Is the SVN

12/8/11

Niall Haslam, Richard Edwards2

11/3/11

Thanks Niall. Looks interesting. No statistics, though, so it suffers from the same old problem that

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Thanks Niall. Looks interesting. No statistics, though, so it suffers from the same old problem that

11/3/11

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