bioprotocols

1–29 of 29

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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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

Jul 5

Hi all, I mentioned these in the scrum meeting but wasn't sure best way to follow up. These links

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Hi all, I mentioned these in the scrum meeting but wasn't sure best way to follow up. These links

Jul 5

Apr 30

HARMONY 2022 Follow Up

Dear Bioprotocols Community, I'd like to thank everyone that joined us last week at the HARMONY

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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 Beal2

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

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

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

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

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 Beal2

Apr 21

Hi, James: PROV-O is a way of describing how things were created from other things. For example, we

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Hi, James: PROV-O is a way of describing how things were created from other things. For example, we

Apr 21

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

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.io9

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

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

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 Beal2

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

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 Fero2

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 Beal7

Feb 4

Workflow process modeling alternatives?

Please do send suggestions and comments by DM --- the manuscript is under review and will have

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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 Ganley2

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 Beal3

Jan 18

One of the things decided at the meeting today was that we needed instant messaging (eg, Slack) for

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One of the things decided at the meeting today was that we needed instant messaging (eg, Slack) for

Jan 18

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 Beal5

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

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 Beal4

10/29/21

FYI for other folks - Alexis & I spent a little bit of time this morning and identified about 20

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FYI for other folks - Alexis & I spent a little bit of time this morning and identified about 20

10/29/21

Alexis Casas, … Jake Beal4

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

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

10/18/21

User Interfaces for Bioprotocols

Dear Bioprotocols Group, I'd like to thank those of you that joined our discussion of UI

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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 Beal4

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

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