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Nullarbor #400

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Nullarbor #400

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196b0ca
added nullarbor dockerfile. doesn't quite build yet, but have most ma…
kapsakcj May 27, 2022
b65c9f7
have most perl modules installed, need to install more stuff still
kapsakcj May 27, 2022
4ef96fb
added nullarbor to README and Program_Licenses.md
kapsakcj Jun 2, 2022
7d7a840
added more stuff to nullarbor dockerfile; still not done
kapsakcj Jun 2, 2022
bf698f1
nullarbor: ALMOST THERE, I THINK
kapsakcj Jun 2, 2022
27088f1
nullarbor dockerfile passes dependency checking. May upgrade to more …
kapsakcj Jun 7, 2022
4805e43
Commented out check command
frankambrosio3 Jun 23, 2022
42567d7
Created a README.md file
frankambrosio3 Jun 28, 2022
8b5e6cc
Merge branch 'master' into cjk-nullarbor
kapsakcj Jun 28, 2022
56473d1
dockerfile instead of container
frankambrosio3 Jun 28, 2022
a809b86
Added myself as maintainer2
frankambrosio3 Jun 28, 2022
f8fbfe8
updated skesa wget line
frankambrosio3 Jun 28, 2022
38dab76
updated versions, uncommented checks
frankambrosio3 Jun 30, 2022
b4bf6e8
updated megahit version
frankambrosio3 Jun 30, 2022
ccb28ae
added abricate setup and db
frankambrosio3 Jul 21, 2022
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1 change: 1 addition & 0 deletions Program_Licenses.md
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Expand Up @@ -71,6 +71,7 @@ The licenses of the open-source software that is contained in these Docker image
| NanoPlot | GNU GPLv3 | https://github.com/wdecoster/NanoPlot/blob/master/LICENSE |
| NCBI AMRFinderPlus | Public Domain | https://github.com/ncbi/amr/blob/master/LICENSE |
| ngmaster | GNU GPLv3 | https://github.com/MDU-PHL/ngmaster/blob/master/LICENSE |
| nullarbor | GNU GPLv2 | https://github.com/tseemann/nullarbor/blob/master/LICENSE |
| OrthoFinder | GNU GPLv3 | https://github.com/davidemms/OrthoFinder/blob/master/License.md |
| Panaroo | MIT | https://github.com/gtonkinhill/panaroo/blob/master/LICENSE |
| Pangolin | GNU GPLv3 | https://github.com/cov-lineages/pangolin/blob/master/LICENSE.txt |
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1 change: 1 addition & 0 deletions README.md
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Expand Up @@ -100,6 +100,7 @@ To learn more about the docker pull rate limits and the open source software pro
| [NanoPlot](https://hub.docker.com/r/staphb/nanoplot) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/nanoplot)](https://hub.docker.com/r/staphb/nanoplot) | <ul><li>1.27.0</li><li>1.29.0</li><li>1.30.1</li><li>1.32.0</li><li>1.33.0</li></ul> | https://github.com/wdecoster/NanoPlot |
| [ngmaster](https://hub.docker.com/r/staphb/ngmaster) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/ngmaster)](https://hub.docker.com/r/staphb/ngmaster) | <ul><li>0.5.8</li></ul> | https://github.com/MDU-PHL/ngmaster |
| [NCBI AMRFinderPlus](https://hub.docker.com/r/staphb/ncbi-amrfinderplus) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/ncbi-amrfinderplus)](https://hub.docker.com/r/staphb/ncbi-amrfinderplus) | <ul><li>3.1.1b</li><li>3.8.4</li><li>3.8.28</li><li>3.9.3</li><li>3.9.8</li><li>3.10.1</li><li>3.10.5</li><li>3.10.16</li><li>3.10.20</li><li>3.10.24</li><li>3.10.30</li></ul> | [https://github.com/ncbi/amr](https://github.com/ncbi/amr) |
| [nullarbor](https://hub.docker.com/r/staphb/nullarbor) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/nullarbor)](https://hub.docker.com/r/staphb/nullarbor) | <ul><li>2.0.20191013</li></ul> | https://github.com/tseemann/nullarbor |
| [OrthoFinder](https://hub.docker.com/r/staphb/OrthoFinder) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/orthofinder)](https://hub.docker.com/r/staphb/orthofinder) | <ul><li>2.17</li></ul> | https://github.com/davidemms/OrthoFinder |
| [Panaroo](https://hub.docker.com/r/staphb/panaroo) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/panaroo)](https://hub.docker.com/r/staphb/panaroo) | <ul><li>1.2.10</li></ul> | https://github.com/gtonkinhill/panaroo |
| [Pangolin](https://hub.docker.com/r/staphb/pangolin) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/pangolin)](https://hub.docker.com/r/staphb/pangolin) | <details><summary> Click to see Pangolin v3 and older versions! </summary> **Pangolin version & pangoLEARN data release date** <ul><li>1.1.14</li><li>2.0.4 & 2020-07-20</li><li>2.0.5 & 2020-07-20</li><li>2.1.1 & 2020-12-17</li><li>2.1.3 & 2020-12-17</li><li>2.1.6 & 2021-01-06</li><li>2.1.7 & 2021-01-11</li><li>2.1.7 & 2021-01-20</li><li>2.1.8 & 2021-01-22</li><li>2.1.10 & 2021-02-01</li><li>2.1.11 & 2021-02-01</li><li>2.1.11 & 2021-02-05</li><li>2.2.1 & 2021-02-06</li><li>2.2.2 & 2021-02-06</li><li>2.2.2 & 2021-02-11</li><li>2.2.2 & 2021-02-12</li><li>2.3.0 & 2021-02-12</li><li>2.3.0 & 2021-02-18</li><li>2.3.0 & 2021-02-21</li><li>2.3.2 & 2021-02-21</li><li>2.3.3 & 2021-03-16</li><li>2.3.4 & 2021-03-16</li><li>2.3.5 & 2021-03-16</li><li>2.3.6 & 2021-03-16</li><li>2.3.6 & 2021-03-29</li><li>2.3.8 & 2021-04-01</li><li>2.3.8 & 2021-04-14</li><li>2.3.8 & 2021-04-21</li><li>2.3.8 & 2021-04-23</li><li>2.4 & 2021-04-28</li><li>2.4.1 & 2021-04-28</li><li>2.4.2 & 2021-04-28</li><li>2.4.2 & 2021-05-10</li><li>2.4.2 & 2021-05-11</li><li>2.4.2 & 2021-05-19</li><li>3.0.5 & 2021-06-05</li><li>3.1.3 & 2021-06-15</li><li>3.1.5 & 2021-06-15</li><li>3.1.5 & 2021-07-07-2</li><li>3.1.7 & 2021-07-09</li><li>3.1.8 & 2021-07-28</li><li>3.1.10 & 2021-07-28</li><li>3.1.11 & 2021-08-09</li><li>3.1.11 & 2021-08-24</li><li>3.1.11 & 2021-09-17</li><li>3.1.14 & 2021-09-28</li><li>3.1.14 & 2021-10-13</li><li>3.1.16 & 2021-10-18</li><li>3.1.16 & 2021-11-04</li><li>3.1.16 & 2021-11-09</li><li>3.1.16 & 2021-11-18</li><li>3.1.16 & 2021-11-25</li><li>3.1.17 & 2021-11-25</li><li>3.1.17 & 2021-12-06</li><li>3.1.17 & 2022-01-05</li><li>3.1.18 & 2022-01-20</li><li>3.1.19 & 2022-01-20</li><li>3.1.20 & 2022-02-02</li><li>3.1.20 & 2022-02-28</li></ul> </details> **Pangolin version & pangolin-data version** </br><ul><li>4.0 & 1.2.133</li><li>4.0.1 & 1.2.133</li><li>4.0.2 & 1.2.133</li><li>4.0.3 & 1.2.133</li><li>4.0.4 & 1.2.133</li><li>4.0.5 & 1.3</li><li>4.0.6 & 1.6</li><li>4.0.6 & 1.8</li><li>4.0.6 & 1.9</li></ul> | https://github.com/cov-lineages/pangolin<br/>https://github.com/cov-lineages/pangoLEARN<br/>https://github.com/cov-lineages/pango-designation<br/>https://github.com/cov-lineages/scorpio<br/>https://github.com/cov-lineages/constellations<br/>https://github.com/cov-lineages/lineages (archived)<br/>https://github.com/hCoV-2019/pangolin (archived) |
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