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bioprotocols
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bioprotocols
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Bioprotocols is a mailing list to coordinate development of a free and open standard for representation of biological protocols. Associated code lives at:
http://bioprotocols.org/
, and there is a Google Drive folder shared with mailing list members.
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Daniel Bryce
2
Jul 6
Bioprotocols Request for Information
Dear Bioprotocols Community, I'd like to send this RFI again as a reminder that our deadline for
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Bioprotocols Request for Information
Dear Bioprotocols Community, I'd like to send this RFI again as a reminder that our deadline for
Jul 6
Timothy Fallon
Jul 5
KNIME & SiLA
Hi all, I mentioned these in the scrum meeting but wasn't sure best way to follow up. These links
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KNIME & SiLA
Hi all, I mentioned these in the scrum meeting but wasn't sure best way to follow up. These links
Jul 5
Daniel Bryce
Apr 30
HARMONY 2022 Follow Up
Dear Bioprotocols Community, I'd like to thank everyone that joined us last week at the HARMONY
unread,
HARMONY 2022 Follow Up
Dear Bioprotocols Community, I'd like to thank everyone that joined us last week at the HARMONY
Apr 30
Timothy Fallon
,
Jake Beal
2
Apr 30
Demo miniprep protocol?
I'd say that if there are people who would commit to start using a PAML miniprep, then it could
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Demo miniprep protocol?
I'd say that if there are people who would commit to start using a PAML miniprep, then it could
Apr 30
Augustin Luna
Apr 29
Open Collective for Non-Profit Group Status
Some slides that I presented last year on OpenCollective: https://docs.google.com/presentation/d/
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Open Collective for Non-Profit Group Status
Some slides that I presented last year on OpenCollective: https://docs.google.com/presentation/d/
Apr 29
Daniel Bryce
2
Apr 29
HARMONY Breakout Sessions
We are starting session 2 on steering the community and next steps in ten minutes at: https://us02web
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HARMONY Breakout Sessions
We are starting session 2 on steering the community and next steps in ten minutes at: https://us02web
Apr 29
Robert Goldman
Apr 27
Container Ontology and Container Server Breakout on Friday
From Slack... @channel A quick note to say that we do have quorum, and I will set up a HARMONY
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Container Ontology and Container Server Breakout on Friday
From Slack... @channel A quick note to say that we do have quorum, and I will set up a HARMONY
Apr 27
Robert Goldman
Apr 25
Invitation to meeting on Friday morning about the Container Ontology and its Server
One more try at setting up a Container Ontology workshop-let at HARMONY this week: Please contact me
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Invitation to meeting on Friday morning about the Container Ontology and its Server
One more try at setting up a Container Ontology workshop-let at HARMONY this week: Please contact me
Apr 25
S James Parsons Jr
,
Jake Beal
2
Apr 21
W3C PROV-O
Hi, James: PROV-O is a way of describing how things were created from other things. For example, we
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W3C PROV-O
Hi, James: PROV-O is a way of describing how things were created from other things. For example, we
Apr 21
Daniel Bryce
Apr 20
Bioprotocols as HARMONY 2022
Dear Colleagues, The Bioprotocols working group is planning two breakout sessions (zoom link) at the
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Bioprotocols as HARMONY 2022
Dear Colleagues, The Bioprotocols working group is planning two breakout sessions (zoom link) at the
Apr 20
Robert Goldman
Apr 7
Solicitation of interest: Container Ontology Hackathon at COMBINE HARMONY
Please contact me directly or respond on the list if you are interested in a session working with the
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Solicitation of interest: Container Ontology Hackathon at COMBINE HARMONY
Please contact me directly or respond on the list if you are interested in a session working with the
Apr 7
Jake Beal
, …
jeremy...@metamerlabs.io
9
Mar 28
COMBINE registration open
As of now, I don't know. I unfortunately missed his container ontology meet. I can try to ping
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COMBINE registration open
As of now, I don't know. I unfortunately missed his container ontology meet. I can try to ping
Mar 28
Daniel Bryce
Mar 15
Today's Status Meeting Canceled
Hi Everyone, Our normally scheduled status meeting today will be canceled. Several of us are away
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Today's Status Meeting Canceled
Hi Everyone, Our normally scheduled status meeting today will be canceled. Several of us are away
Mar 15
Daniel Bryce
Mar 11
Container Ontology Meeting
Dear Community, We are starting our discussion of the container ontology developed by Robert Goldman
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Container Ontology Meeting
Dear Community, We are starting our discussion of the container ontology developed by Robert Goldman
Mar 11
Daniel Bryce
,
Jake Beal
2
Mar 1
Status Meeting Recordings
Reminder to all as well: this mailing list is being kept low-traffic and focused on announcements.
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Status Meeting Recordings
Reminder to all as well: this mailing list is being kept low-traffic and focused on announcements.
Mar 1
Robert Goldman
Feb 23
Discussion of container ontology and representation of equipment
Per our last PAML weekly meeting, I have volunteered to organize a side meeting to discuss both the
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Discussion of container ontology and representation of equipment
Per our last PAML weekly meeting, I have volunteered to organize a side meeting to discuss both the
Feb 23
Daniel Bryce
,
Mike Fero
2
Feb 17
PAML Editor alpha release
Hi Dan, This is great! We will take a look. Mike On Feb 17, 2022, at 11:00 AM, Daniel Bryce <
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PAML Editor alpha release
Hi Dan, This is great! We will take a look. Mike On Feb 17, 2022, at 11:00 AM, Daniel Bryce <
Feb 17
Timothy Fallon
, …
Jake Beal
7
Feb 4
Workflow process modeling alternatives?
Please do send suggestions and comments by DM --- the manuscript is under review and will have
unread,
Workflow process modeling alternatives?
Please do send suggestions and comments by DM --- the manuscript is under review and will have
Feb 4
Daniel Bryce
,
Emma Ganley
2
Jan 25
PAML Status meeting starting soon
Hi Apologies but this clashes with another call for me today – I'll try to make the next meeting.
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PAML Status meeting starting soon
Hi Apologies but this clashes with another call for me today – I'll try to make the next meeting.
Jan 25
danbr...@gmail.com
Jan 18
danbryce410@gmail.com has shared a calendar with you
Hello bioprotocols, We are writing to let you know that danbryce410@gmail.com has given you access to
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danbryce410@gmail.com has shared a calendar with you
Hello bioprotocols, We are writing to let you know that danbryce410@gmail.com has given you access to
Jan 18
luiza gomes
, …
Jake Beal
3
Jan 18
Meeting notes
One of the things decided at the meeting today was that we needed instant messaging (eg, Slack) for
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Meeting notes
One of the things decided at the meeting today was that we needed instant messaging (eg, Slack) for
Jan 18
Daniel Bryce
2
Jan 17
Scheduling a Weekly PAML Status Discussion
Hi Everyone, Based upon the feedback I've received thus far, it looks like Tuesdays at 11am EST
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Scheduling a Weekly PAML Status Discussion
Hi Everyone, Based upon the feedback I've received thus far, it looks like Tuesdays at 11am EST
Jan 17
Tim Dobbs
, …
Jake Beal
5
12/8/21
[bug] Can't install PAML Python package
Yes, let's take the debugging over to issues, so that it's not noise for the full mailing
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[bug] Can't install PAML Python package
Yes, let's take the debugging over to issues, so that it's not noise for the full mailing
12/8/21
Jacob Beal
11/24/21
Writing up the current state of PAML
Hi, all: There's a special issue I was asked to contribute to that includes a specific request
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Writing up the current state of PAML
Hi, all: There's a special issue I was asked to contribute to that includes a specific request
11/24/21
Tim Dobbs
, …
Jacob Beal
4
10/29/21
iGEM for PAML?
FYI for other folks - Alexis & I spent a little bit of time this morning and identified about 20
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iGEM for PAML?
FYI for other folks - Alexis & I spent a little bit of time this morning and identified about 20
10/29/21
Alexis Casas
, …
Jake Beal
4
10/20/21
Protocol licenses
You raise some very good points, Peter. It also caused me to just check and see while the PAML
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Protocol licenses
You raise some very good points, Peter. It also caused me to just check and see while the PAML
10/20/21
Jacob Beal
2
10/20/21
Kicking off the Bioprotocols group
Hi, folks: It appears that Google Groups now defaults to "never receive email" as the
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Kicking off the Bioprotocols group
Hi, folks: It appears that Google Groups now defaults to "never receive email" as the
10/20/21
Daniel Bryce
10/18/21
User Interfaces for Bioprotocols
Dear Bioprotocols Group, I'd like to thank those of you that joined our discussion of UI
unread,
User Interfaces for Bioprotocols
Dear Bioprotocols Group, I'd like to thank those of you that joined our discussion of UI
10/18/21
Alexis Casas
,
Jacob Beal
4
10/18/21
Collab - Golden Gate protocol
OK, I've added them to in two sub-folders: - "Strateos" contains the autoprotocol,
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Collab - Golden Gate protocol
OK, I've added them to in two sub-folders: - "Strateos" contains the autoprotocol,
10/18/21