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Egon Willighagen
2
Jul 30
BridgeDb release series
Hi all, a quick update. BridgeDb Java 3.0.x: I just released 3.0.27. Please check the recent releases
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BridgeDb release series
Hi all, a quick update. BridgeDb Java 3.0.x: I just released 3.0.27. Please check the recent releases
Jul 30
Egon Willighagen
,
Alex Pico
3
8/26/23
[WikiPathways | BridgeDb] Uniprot-TrEMBL -> UniProtKB transition
On Thu, 17 Aug 2023 at 20:28, 'Alex Pico' via bridgedb-discuss <bridgedb-discuss@
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[WikiPathways | BridgeDb] Uniprot-TrEMBL -> UniProtKB transition
On Thu, 17 Aug 2023 at 20:28, 'Alex Pico' via bridgedb-discuss <bridgedb-discuss@
8/26/23
Jaione Telleria
,
Egon Willighagen
5
3/12/23
Uploading metabolites file
Ah, okay, happy to hear that. Egon On Fri, 10 Mar 2023 at 10:02, Jaione Telleria <jaiointux99@
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Uploading metabolites file
Ah, okay, happy to hear that. Egon On Fri, 10 Mar 2023 at 10:02, Jaione Telleria <jaiointux99@
3/12/23
Martin Preusse
2
3/10/22
Flat file export
Hi everyone, is it possible to get a flat file export of BridgeDB? My team has no experience in Java
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Flat file export
Hi everyone, is it possible to get a flat file export of BridgeDB? My team has no experience in Java
3/10/22
Egon Willighagen
2/14/22
new Ensembl gene/protein mapping files
Hi all, the BiGCaT team (Tooba, Luc, Martina) worked over the last month on updating the Ensembl gene
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new Ensembl gene/protein mapping files
Hi all, the BiGCaT team (Tooba, Luc, Martina) worked over the last month on updating the Ensembl gene
2/14/22
Egon Willighagen
2
12/16/21
BridgeDb and log4j
Hi all, a quick follow up. On Sun, Dec 12, 2021 at 11:27 PM Egon Willighagen <egon.willighagen@
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BridgeDb and log4j
Hi all, a quick follow up. On Sun, Dec 12, 2021 at 11:27 PM Egon Willighagen <egon.willighagen@
12/16/21
Egon Willighagen
, …
Anders Riutta
4
11/3/21
HELP: old BridgeDb gene/protein ID mapping files
On Wed, Oct 27, 2021 at 1:25 AM Alexander Pico <xande...@gmail.com> wrote: I do not. Anders
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HELP: old BridgeDb gene/protein ID mapping files
On Wed, Oct 27, 2021 at 1:25 AM Alexander Pico <xande...@gmail.com> wrote: I do not. Anders
11/3/21
Egon Willighagen
10/1/21
TLS 1.2 and connectivity to wikipathays.org and bridgedb.org
Hi all, today TLS 1.0 and 1.1 have been phased out. We learned last night that our WikiPathways and
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TLS 1.2 and connectivity to wikipathays.org and bridgedb.org
Hi all, today TLS 1.0 and 1.1 have been phased out. We learned last night that our WikiPathways and
10/1/21
Julian Dekker
3/25/21
Quick setup help
Hi everyone, I love the project and am very interested into using it but I do not have any experience
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Quick setup help
Hi everyone, I love the project and am very interested into using it but I do not have any experience
3/25/21
Ronan MT Fleming
1/11/21
Metabolite identifier mapping methodology
Hi all, I am trying to find a description of the methods used by BridgeDb to cross map metabolite
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Metabolite identifier mapping methodology
Hi all, I am trying to find a description of the methods used by BridgeDb to cross map metabolite
1/11/21
Egon Willighagen
,
Evelo, Chris (BIGCAT)
3
11/22/20
Derby 10.5 or newer
On Sun, Nov 22, 2020 at 5:39 PM Evelo, Chris (BIGCAT) <chris...@maastrichtuniversity.nl>
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Derby 10.5 or newer
On Sun, Nov 22, 2020 at 5:39 PM Evelo, Chris (BIGCAT) <chris...@maastrichtuniversity.nl>
11/22/20
kozo.n...@gmail.com
,
Egon Willighagen
3
7/21/20
Porting BridgeDbR to Python
Hi Egon, Thanks for your advice. I will probably use https://github.com/kivy/pyjnius I will ask you
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Porting BridgeDbR to Python
Hi Egon, Thanks for your advice. I will probably use https://github.com/kivy/pyjnius I will ask you
7/21/20
Egon Willighagen
5/3/20
BridgeDbR as part of Bioconductor 3.11
Hi all, just a quick update. Bioconductor 3.11 was release with an updated BridgeDbR package. It has
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BridgeDbR as part of Bioconductor 3.11
Hi all, just a quick update. Bioconductor 3.11 was release with an updated BridgeDbR package. It has
5/3/20
Egon Willighagen
5/3/20
more goodies in the new /data/gene_database/
Hi all, one week to late for our ELIXIR RIR reporting, but alas. So, back in February last year, oh
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more goodies in the new /data/gene_database/
Hi all, one week to late for our ELIXIR RIR reporting, but alas. So, back in February last year, oh
5/3/20
Egon Willighagen
,
Gray, Alasdair J G
3
2/13/20
update after UM cyberattack
Hi all, Following up on one of the points earlier this morning: On Thu, Feb 13, 2020 at 8:26 AM Egon
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update after UM cyberattack
Hi all, Following up on one of the points earlier this morning: On Thu, Feb 13, 2020 at 8:26 AM Egon
2/13/20
Martijn van Iersel
,
Egon Willighagen
2
12/30/19
Fwd: [BioCatalogue] Service 'BridgeRest' has a test change status from PASSED to FAILED
Hi Martijn, this is because of UM having been hacked and the UM core systems are suffering from
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Fwd: [BioCatalogue] Service 'BridgeRest' has a test change status from PASSED to FAILED
Hi Martijn, this is because of UM having been hacked and the UM core systems are suffering from
12/30/19
Egon Willighagen
, …
Gray, Alasdair J G
4
12/9/19
suggestion: rename BridgeDb IMS from Identifier Mapping Service to IRI Mapping Service?
I would prefer to see the IMS as just an interface to BridgeDb and we sell it as BridgeDb. For me,
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suggestion: rename BridgeDb IMS from Identifier Mapping Service to IRI Mapping Service?
I would prefer to see the IMS as just an interface to BridgeDb and we sell it as BridgeDb. For me,
12/9/19
Egon Willighagen
11/22/19
BridgeDb 2.3.4 released
Hi all, this week I released BridgeDb 2.3.4 [0] for one particular reason, the backporting of the /
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BridgeDb 2.3.4 released
Hi all, this week I released BridgeDb 2.3.4 [0] for one particular reason, the backporting of the /
11/22/19
petros.pa...@gmail.com
11/15/19
IMS and MySQL issues
Hi All, I have started working with Alasdair from Heriot-Watt University a few weeks ago and one of
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IMS and MySQL issues
Hi All, I have started working with Alasdair from Heriot-Watt University a few weeks ago and one of
11/15/19
Egon Willighagen
8/22/19
Fwd: wrapping up
Hi all, Manas' GSoC project is coming to an end. This week it is time for him to wrap up. He just
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Fwd: wrapping up
Hi all, Manas' GSoC project is coming to an end. This week it is time for him to wrap up. He just
8/22/19
Gray, Alasdair J G
,
Egon Willighagen
3
7/23/19
Working IMS
Egon, thanks for the response. On 23 Jul 2019, at 09:23, Egon Willighagen <egon.willighagen@gmail.
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Working IMS
Egon, thanks for the response. On 23 Jul 2019, at 09:23, Egon Willighagen <egon.willighagen@gmail.
7/23/19
Gray, Alasdair J G
7/18/19
Re: [bridgedb/BridgeDb] Qc updates (#122)
Hi I just saw the below commit message and I'm curious as to whether we are using the Guide to
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Re: [bridgedb/BridgeDb] Qc updates (#122)
Hi I just saw the below commit message and I'm curious as to whether we are using the Guide to
7/18/19
Egon Willighagen
7/18/19
BridgeDb session at the ELIXIR BioHackathon Europe 2019
Hi all, we have a hackathon project for BioHackathon Europe 2019; we're project 27: https://www.
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BridgeDb session at the ELIXIR BioHackathon Europe 2019
Hi all, we have a hackathon project for BioHackathon Europe 2019; we're project 27: https://www.
7/18/19
Manas Awasthi
,
Egon Willighagen
5
7/13/19
adding RDF to Groovy Script
Hi Manas, On Sat, Jul 13, 2019 at 3:37 PM Manas Awasthi <marv...@gmail.com> wrote: Apart from
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adding RDF to Groovy Script
Hi Manas, On Sat, Jul 13, 2019 at 3:37 PM Manas Awasthi <marv...@gmail.com> wrote: Apart from
7/13/19
Egon Willighagen
,
Manas Awasthi
3
7/11/19
Tagging unit tests
On Thu, Jul 11, 2019 at 3:24 PM Manas Awasthi <marv...@gmail.com> wrote: I have already
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Tagging unit tests
On Thu, Jul 11, 2019 at 3:24 PM Manas Awasthi <marv...@gmail.com> wrote: I have already
7/11/19
Manas Awasthi
6/28/19
Google Summer of Code Progress
Hello Everyone, Since the first coding period is coming to end, I have documented my progress through
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Google Summer of Code Progress
Hello Everyone, Since the first coding period is coming to end, I have documented my progress through
6/28/19
Manas Awasthi
, …
Nuno M
9
6/7/19
Secondary ID support for BridgeDb
Hi Egon, Manas, I think what Manas is questioning is where to store, persistently, the property
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Secondary ID support for BridgeDb
Hi Egon, Manas, I think what Manas is questioning is where to store, persistently, the property
6/7/19
Egon Willighagen
, …
Evelo, Chris (BIGCAT)
15
6/2/19
Proposal to rename UniProt-Trembl to UniProtKB
Hi all, as promised. On Thu, May 9, 2019 at 7:24 AM Egon Willighagen <egon.wil...@gmail.com
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Proposal to rename UniProt-Trembl to UniProtKB
Hi all, as promised. On Thu, May 9, 2019 at 7:24 AM Egon Willighagen <egon.wil...@gmail.com
6/2/19
Nuno M
,
Egon Willighagen
2
5/29/19
New folder structure for the download folders on BridgeDb
Looks good to me. I left a few comments in the document. Egon On Mon, May 27, 2019 at 7:48 PM Nuno M
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New folder structure for the download folders on BridgeDb
Looks good to me. I left a few comments in the document. Egon On Mon, May 27, 2019 at 7:48 PM Nuno M
5/29/19
Egon Willighagen
5/15/19
next BridgeDb telcon: May 24, 3pm CEST
Hi all, thanks to everyone who filled out the Doodle. A day/time has been selected now. A preliminary
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next BridgeDb telcon: May 24, 3pm CEST
Hi all, thanks to everyone who filled out the Doodle. A day/time has been selected now. A preliminary
5/15/19