Skip to content

Commit 501e4fd

Browse files
bedrogebedroge
authored
Merge pull request #435 from EESSIbot/update-software-overview-1745545842
2 parents 2b21deb + 8187439 commit 501e4fd

7 files changed

Lines changed: 222 additions & 3 deletions

File tree

‎docs/available_software/data/json_data.json‎

Lines changed: 1 addition & 1 deletion
Large diffs are not rendered by default.

‎docs/available_software/data/json_data_detail.json‎

Lines changed: 1 addition & 1 deletion
Large diffs are not rendered by default.

‎docs/available_software/detail/Gblocks.md‎

Lines changed: 54 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,54 @@
1+
---
2+
hide:
3+
- toc
4+
json_ld:
5+
'@context': https://schema.org
6+
'@type': SoftwareApplication
7+
applicationCategory: DeveloperApplication
8+
description: Selection of conserved blocks from multiple alignments for their use
9+
in phylogenetic analysis
10+
license: Not confirmed
11+
name: Gblocks
12+
offers:
13+
'@type': Offer
14+
price: 0
15+
operatingSystem: LINUX
16+
review:
17+
'@type': Review
18+
author:
19+
'@type': Organization
20+
name: EESSI
21+
reviewBody: Application has been successfully made available on all architectures
22+
supported by EESSI
23+
reviewRating:
24+
'@type': Rating
25+
ratingValue: 5
26+
softwareRequirements: See https://www.eessi.io/docs/ for how to make EESSI available
27+
on your system
28+
softwareVersion: '[''Gblocks/0.91b'']'
29+
url: https://www.biologiaevolutiva.org/jcastresana/Gblocks.html
30+
---
31+
32+
Gblocks
33+
=======
34+
35+
36+
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
37+
38+
https://www.biologiaevolutiva.org/jcastresana/Gblocks.html
39+
# Available modules
40+
41+
42+
The overview below shows which Gblocks installations are available per target architecture in EESSI, ordered based on software version (new to old).
43+
44+
To start using Gblocks, load one of these modules using a `module load` command like:
45+
46+
```shell
47+
module load Gblocks/0.91b
48+
```
49+
50+
*(This data was automatically generated on {{ generated_time }})*
51+
52+
| |aarch64/generic|aarch64/neoverse_n1|aarch64/neoverse_v1|x86_64/generic|x86_64/amd/zen2|x86_64/amd/zen3|x86_64/amd/zen4|x86_64/intel/haswell|x86_64/intel/sapphirerapids|x86_64/intel/skylake_avx512|
53+
| :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: |
54+
|Gblocks/0.91b|x|x|x|x|x|x|x|x|x|x|

‎docs/available_software/detail/MUSCLE.md‎

Lines changed: 57 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,57 @@
1+
---
2+
hide:
3+
- toc
4+
json_ld:
5+
'@context': https://schema.org
6+
'@type': SoftwareApplication
7+
applicationCategory: DeveloperApplication
8+
description: MUSCLE is one of the best-performing multiple alignment programs according
9+
to published benchmark tests, with accuracy and speed that are consistently better
10+
than CLUSTALW. MUSCLE can align hundreds of sequences in seconds. Most users learn
11+
everything they need to know about MUSCLE in a few minutes-only a handful of command-line
12+
options are needed to perform common alignment tasks.
13+
license: Not confirmed
14+
name: MUSCLE
15+
offers:
16+
'@type': Offer
17+
price: 0
18+
operatingSystem: LINUX
19+
review:
20+
'@type': Review
21+
author:
22+
'@type': Organization
23+
name: EESSI
24+
reviewBody: Application has been successfully made available on all architectures
25+
supported by EESSI
26+
reviewRating:
27+
'@type': Rating
28+
ratingValue: 5
29+
softwareRequirements: See https://www.eessi.io/docs/ for how to make EESSI available
30+
on your system
31+
softwareVersion: '[''MUSCLE/5.1.0-GCCcore-12.3.0'']'
32+
url: https://drive5.com/muscle/
33+
---
34+
35+
MUSCLE
36+
======
37+
38+
39+
MUSCLE is one of the best-performing multiple alignment programs according to published benchmark tests, with accuracy and speed that are consistently better than CLUSTALW. MUSCLE can align hundreds of sequences in seconds. Most users learn everything they need to know about MUSCLE in a few minutes-only a handful of command-line options are needed to perform common alignment tasks.
40+
41+
https://drive5.com/muscle/
42+
# Available modules
43+
44+
45+
The overview below shows which MUSCLE installations are available per target architecture in EESSI, ordered based on software version (new to old).
46+
47+
To start using MUSCLE, load one of these modules using a `module load` command like:
48+
49+
```shell
50+
module load MUSCLE/5.1.0-GCCcore-12.3.0
51+
```
52+
53+
*(This data was automatically generated on {{ generated_time }})*
54+
55+
| |aarch64/generic|aarch64/neoverse_n1|aarch64/neoverse_v1|x86_64/generic|x86_64/amd/zen2|x86_64/amd/zen3|x86_64/amd/zen4|x86_64/intel/haswell|x86_64/intel/sapphirerapids|x86_64/intel/skylake_avx512|
56+
| :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: |
57+
|MUSCLE/5.1.0-GCCcore-12.3.0|x|x|x|x|x|x|x|x|x|x|

‎docs/available_software/detail/RAxML.md‎

Lines changed: 55 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,55 @@
1+
---
2+
hide:
3+
- toc
4+
json_ld:
5+
'@context': https://schema.org
6+
'@type': SoftwareApplication
7+
applicationCategory: DeveloperApplication
8+
description: RAxML search algorithm for maximum likelihood based inference of phylogenetic
9+
trees.
10+
license: Not confirmed
11+
name: RAxML
12+
offers:
13+
'@type': Offer
14+
price: 0
15+
operatingSystem: LINUX
16+
review:
17+
'@type': Review
18+
author:
19+
'@type': Organization
20+
name: EESSI
21+
reviewBody: Application has been successfully made available on all architectures
22+
supported by EESSI
23+
reviewRating:
24+
'@type': Rating
25+
ratingValue: 5
26+
softwareRequirements: See https://www.eessi.io/docs/ for how to make EESSI available
27+
on your system
28+
softwareVersion: '[''RAxML/8.2.13-gompi-2023a-avx2'', ''RAxML/8.2.13-gompi-2023a-standard'']'
29+
url: https://github.com/stamatak/standard-RAxML
30+
---
31+
32+
RAxML
33+
=====
34+
35+
36+
RAxML search algorithm for maximum likelihood based inference of phylogenetic trees.
37+
38+
https://github.com/stamatak/standard-RAxML
39+
# Available modules
40+
41+
42+
The overview below shows which RAxML installations are available per target architecture in EESSI, ordered based on software version (new to old).
43+
44+
To start using RAxML, load one of these modules using a `module load` command like:
45+
46+
```shell
47+
module load RAxML/8.2.13-gompi-2023a-standard
48+
```
49+
50+
*(This data was automatically generated on {{ generated_time }})*
51+
52+
| |aarch64/generic|aarch64/neoverse_n1|aarch64/neoverse_v1|x86_64/generic|x86_64/amd/zen2|x86_64/amd/zen3|x86_64/amd/zen4|x86_64/intel/haswell|x86_64/intel/sapphirerapids|x86_64/intel/skylake_avx512|
53+
| :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: |
54+
|RAxML/8.2.13-gompi-2023a-standard|x|x|x|-|-|-|-|-|-|-|
55+
|RAxML/8.2.13-gompi-2023a-avx2|-|-|-|x|x|x|x|x|x|x|

‎docs/available_software/detail/bcgTree.md‎

Lines changed: 53 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -0,0 +1,53 @@
1+
---
2+
hide:
3+
- toc
4+
json_ld:
5+
'@context': https://schema.org
6+
'@type': SoftwareApplication
7+
applicationCategory: DeveloperApplication
8+
description: Automatized phylogenetic tree building from bacterial core genomes.
9+
license: Not confirmed
10+
name: bcgTree
11+
offers:
12+
'@type': Offer
13+
price: 0
14+
operatingSystem: LINUX
15+
review:
16+
'@type': Review
17+
author:
18+
'@type': Organization
19+
name: EESSI
20+
reviewBody: Application has been successfully made available on all architectures
21+
supported by EESSI
22+
reviewRating:
23+
'@type': Rating
24+
ratingValue: 5
25+
softwareRequirements: See https://www.eessi.io/docs/ for how to make EESSI available
26+
on your system
27+
softwareVersion: '[''bcgTree/1.2.1-foss-2023a'']'
28+
url: https://github.com/molbiodiv/bcgTree
29+
---
30+
31+
bcgTree
32+
=======
33+
34+
35+
Automatized phylogenetic tree building from bacterial core genomes.
36+
37+
https://github.com/molbiodiv/bcgTree
38+
# Available modules
39+
40+
41+
The overview below shows which bcgTree installations are available per target architecture in EESSI, ordered based on software version (new to old).
42+
43+
To start using bcgTree, load one of these modules using a `module load` command like:
44+
45+
```shell
46+
module load bcgTree/1.2.1-foss-2023a
47+
```
48+
49+
*(This data was automatically generated on {{ generated_time }})*
50+
51+
| |aarch64/generic|aarch64/neoverse_n1|aarch64/neoverse_v1|x86_64/generic|x86_64/amd/zen2|x86_64/amd/zen3|x86_64/amd/zen4|x86_64/intel/haswell|x86_64/intel/sapphirerapids|x86_64/intel/skylake_avx512|
52+
| :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: |
53+
|bcgTree/1.2.1-foss-2023a|x|x|x|x|x|x|x|x|x|x|

‎mkdocs.yml‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -137,7 +137,7 @@ extra:
137137
- icon: fontawesome/brands/twitter
138138
link: https://twitter.com/eessi_hpc
139139
# this gets auto-updated via update_generated_time.sh script run in update_available_software.yml action
140-
generated_time: "Tue, 08 Apr 2025 at 01:48:33 UTC"
140+
generated_time: "Fri, 25 Apr 2025 at 01:50:40 UTC"
141141
extra_javascript:
142142
# mermaid diagram
143143
- https://cdn.jsdelivr.net/npm/mermaid@10/dist/mermaid.esm.min.mjs

0 commit comments

Comments
 (0)