Difference between revisions of "Leaf LIMS"

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(Updated to discontinued)
 
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| developer              = University of Liverpool, Edinburgh University, and Earlam Institute
| developer              = University of Liverpool, Edinburgh University, and Earlam Institute
| released              = {{Start date|2017|07|21}} (1.0)<ref name="LeafLIMSSReleases">{{cite web |url=https://github.com/LeafLIMS/LeafLIMS/releases |title=LeafLIMS - Releases |work=LeafLIMS |publisher=GitHub, Inc |accessdate=06 October 2017}}</ref>
| released              = {{Start date|2017|07|21}} (1.0)<ref name="LeafLIMSSReleases">{{cite web |url=https://github.com/LeafLIMS/LeafLIMS/releases |title=LeafLIMS - Releases |work=LeafLIMS |publisher=GitHub, Inc |accessdate=06 October 2017}}</ref>
| discontinued          =  
| discontinued          = Yes
| frequently updated    = yes<!-- Release version update? Don't edit this page, just click on the version number! -->
| frequently updated    = yes<!-- Release version update? Don't edit this page, just click on the version number! -->
| programming language  = Python
| programming language  = Python
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}}
}}


'''Leaf LIMS''' is an open-source [[laboratory information management system]] (LIMS) "designed specifically to address synthetic biology processes."<ref name="CraigLeafLIMS17">{{cite journal |title=Leaf LIMS: A Flexible Laboratory Information Management System with a Synthetic Biology Focus |journal=ACS Synthetic Biology |author=Craig, T.; Holland, R.; D'Amore, R. et al. |year=2017 |doi=10.1021/acssynbio.7b00212 |pmid=28877583}}</ref>
'''Leaf LIMS''' was an open-source [[laboratory information management system]] (LIMS) "designed specifically to address synthetic biology processes."<ref name="CraigLeafLIMS17">{{cite journal |title=Leaf LIMS: A Flexible Laboratory Information Management System with a Synthetic Biology Focus |journal=ACS Synthetic Biology |author=Craig, T.; Holland, R.; D'Amore, R. et al. |year=2017 |doi=10.1021/acssynbio.7b00212 |pmid=28877583}}</ref>


==Product history==
==Product history==
Leaf LIMS is a collaboration of efforts from three biological research groups: GeneMill at the University of Liverpool, the EGF at the University of Edinburgh, and the Earlham Institute.<ref name="LeafLIMSIntro">{{cite web |url=https://leaflims.github.io/ |title=LeafLIMS |work=LeafLIMS |publisher=GitHub, Inc |accessdate=06 October 2017}}</ref> It's not clear when the project was first conceived, but Leaf LIMS appears to be a "clean slate conversion of the Odin LIMS,"<ref name="LIMSBackEndFirst">{{cite web |url=https://github.com/LeafLIMS/LIMS-Backend/commit/cf71c34386ec5c38b427af0feb90a6837ea324d5 |title=Initial commit |work=LIMS-Backend |publisher=GitHub, Inc |date=26 May 2016 |accessdate=06 October 2017}}</ref> presumably the biomolecular structure prediction software ODIN developed by T.J. Lane ''et al.'' on GitHub.<ref name="OdinHome">{{cite web |url=https://github.com/tjlane/odin |title=ODIN |work=ODIN |publisher=GitHub, Inc |accessdate=06 October 2017}}</ref> The first public open-source material for Leaf LIMS started to appear on GitHub in May 2016<ref name="LIMSBackEndFirst" />, and an initial 1.0 release of the software arrived in July 2017.<ref name="LeafLIMSSReleases" />
Leaf LIMS was a collaboration of efforts from three biological research groups: GeneMill at the University of Liverpool, the EGF at the University of Edinburgh, and the Earlham Institute.<ref name="LeafLIMSIntro">{{cite web |url=https://leaflims.github.io/ |archiveurl=https://web.archive.org/web/20201123120529/https://leaflims.github.io/ |title=LeafLIMS |work=LeafLIMS |publisher=GitHub, Inc |archivedate=23 November 2020 |accessdate=28 December 2021}}</ref> It's not clear when the project was first conceived, but Leaf LIMS appears to have been a "clean slate conversion of the Odin LIMS,"<ref name="LIMSBackEndFirst">{{cite web |url=https://github.com/LeafLIMS/LIMS-Backend/commit/cf71c34386ec5c38b427af0feb90a6837ea324d5 |title=Initial commit |work=LIMS-Backend |publisher=GitHub, Inc |date=26 May 2016 |accessdate=06 October 2017}}</ref> presumably the biomolecular structure prediction software ODIN developed by T.J. Lane ''et al.'' on GitHub.<ref name="OdinHome">{{cite web |url=https://github.com/tjlane/odin |archiveurl=https://web.archive.org/web/20180611002940/https://github.com/tjlane/odin |title=ODIN |work=ODIN |publisher=GitHub, Inc |archivedate=11 June 2018 |accessdate=28 December 2021}}</ref> The first public open-source material for Leaf LIMS started to appear on GitHub in May 2016<ref name="LIMSBackEndFirst" />, and an initial 1.0 release of the software arrived in July 2017.<ref name="LeafLIMSSReleases" />
 
Sometime in 2020, the GitHub page for LeafLIMS was updated with the following: "PLEASE NOTE: Due to lack of funding Leaf LIMS is no longer being developed/updated."<ref name="GHLeafArch">{{cite web |url=https://github.com/LeafLIMS/LeafLIMS |archiveurl=https://web.archive.org/web/20201111130725/https://github.com/LeafLIMS/LeafLIMS |title=LeafLIMS / LeafLIMS |publisher=GitHub, Inc |archivedate=11 November 2020 |accessdate=28 December 2021}}</ref> The last known version is v3.3.


==Features==
==Features==
Features of Leaf LIMS include<ref name="LeafLIMSIntro" />:
Features of Leaf LIMS included<ref name="LeafLIMSIntro" />:


* sample management and tracking
* sample management and tracking
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==Hardware/software requirements==
==Hardware/software requirements==
Docker and docker-compose are used for the easiest installation, though Leaf LIMS can be installed (though more complicated) without Docker. Consult the [https://leaflims.github.io/ quick start] section for more details.
Docker and docker-compose were used for the easiest installation, though Leaf LIMS could also be installed (though more complicated) without Docker. The [https://web.archive.org/web/20201123120529/https://leaflims.github.io/ quick start] section had more details.


==Videos, screenshots, and other media==
==Videos, screenshots, and other media==


* [https://leaflims.github.io/docs/ Leaf LIMS documentation]
* [https://web.archive.org/web/20201123120536/https://leaflims.github.io/docs/ Leaf LIMS documentation]


==Entities using Leaf LIMS==
==Entities using Leaf LIMS==
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==External links==
==External links==


* [https://leaflims.github.io/ Leaf LIMS start page]
* [https://leaflims.github.io/ Leaf LIMS start page] (archived)


==References==
==References==
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<!---Place all category tags here-->
<!---Place all category tags here-->
[[Category:Bioinformatics software (open source)]]
[[Category:Discontinued or abandoned software (open source)]]
[[Category:Laboratory informatics software (open source)]]
[[Category:Laboratory information management systems (open source)]]

Latest revision as of 18:47, 28 December 2021

Leaf LIMS
Developer(s) University of Liverpool, Edinburgh University, and Earlam Institute
Initial release July 21, 2017 (2017-07-21) (1.0)[1]
Discontinued

3.3  (May 22, 2018; 5 years ago (2018-05-22))

[±]
Written in Python
Operating system platform-independent
Type Laboratory informatics software
License(s) MIT License
Website github.com/LeafLIMS

Leaf LIMS was an open-source laboratory information management system (LIMS) "designed specifically to address synthetic biology processes."[2]

Product history

Leaf LIMS was a collaboration of efforts from three biological research groups: GeneMill at the University of Liverpool, the EGF at the University of Edinburgh, and the Earlham Institute.[3] It's not clear when the project was first conceived, but Leaf LIMS appears to have been a "clean slate conversion of the Odin LIMS,"[4] presumably the biomolecular structure prediction software ODIN developed by T.J. Lane et al. on GitHub.[5] The first public open-source material for Leaf LIMS started to appear on GitHub in May 2016[4], and an initial 1.0 release of the software arrived in July 2017.[1]

Sometime in 2020, the GitHub page for LeafLIMS was updated with the following: "PLEASE NOTE: Due to lack of funding Leaf LIMS is no longer being developed/updated."[6] The last known version is v3.3.

Features

Features of Leaf LIMS included[3]:

  • sample management and tracking
  • project tracking
  • inventory management
  • workflow management
  • group-based user permissions
  • customizable alerts
  • audit trail
  • mobile compatibility

Hardware/software requirements

Docker and docker-compose were used for the easiest installation, though Leaf LIMS could also be installed (though more complicated) without Docker. The quick start section had more details.

Videos, screenshots, and other media

Entities using Leaf LIMS

Further reading

  • Craig, T.; Holland, R.; D'Amore, R. et al. (2017). "Leaf LIMS: A Flexible Laboratory Information Management System with a Synthetic Biology Focus". ACS Synthetic Biology. doi:10.1021/acssynbio.7b00212. PMID 28877583. 


External links

References

  1. ↑ 1.0 1.1 "LeafLIMS - Releases". LeafLIMS. GitHub, Inc. https://github.com/LeafLIMS/LeafLIMS/releases. Retrieved 06 October 2017. 
  2. ↑ Craig, T.; Holland, R.; D'Amore, R. et al. (2017). "Leaf LIMS: A Flexible Laboratory Information Management System with a Synthetic Biology Focus". ACS Synthetic Biology. doi:10.1021/acssynbio.7b00212. PMID 28877583. 
  3. ↑ 3.0 3.1 "LeafLIMS". LeafLIMS. GitHub, Inc. Archived from the original on 23 November 2020. https://web.archive.org/web/20201123120529/https://leaflims.github.io/. Retrieved 28 December 2021. 
  4. ↑ 4.0 4.1 "Initial commit". LIMS-Backend. GitHub, Inc. 26 May 2016. https://github.com/LeafLIMS/LIMS-Backend/commit/cf71c34386ec5c38b427af0feb90a6837ea324d5. Retrieved 06 October 2017. 
  5. ↑ "ODIN". ODIN. GitHub, Inc. Archived from the original on 11 June 2018. https://web.archive.org/web/20180611002940/https://github.com/tjlane/odin. Retrieved 28 December 2021. 
  6. ↑ "LeafLIMS / LeafLIMS". GitHub, Inc. Archived from the original on 11 November 2020. https://web.archive.org/web/20201111130725/https://github.com/LeafLIMS/LeafLIMS. Retrieved 28 December 2021. 
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