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add diamond toolmsg #1414

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merged 2 commits into from
Feb 21, 2025
Merged

add diamond toolmsg #1414

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1840a5d
add diamond toolmsg
bgruening Feb 21, 2025
705d79a
fix blastp definition in the toolmsg
sanjaysrikakulam Feb 21, 2025
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23 changes: 8 additions & 15 deletions group_vars/sn06/toolmsg.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -16,25 +16,18 @@
# message: <strong>We recommend using Diamond instead.</strong>
# class: warning

# Example 2: Display a warning message for the tool ncbi_blastp_wrapper, the message will be in bold format and will have a link to the Diamond tool
# toolmsg_messages:
# - tool_id: toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper
# message: >
# <strong>We recommend using
# <a href="https://usegalaxy.eu/?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fdiamond%2Fbg_diamond%2F2.1.11%2Bgalaxy0&version=latest"
# target="_blank"
# >
# Diamond
# </a>
# instead.</strong>
# class: warning
toolmsg_messages:
- tool_id: toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper
message: >
<strong>We recommend using
<a href="https://usegalaxy.eu/?tool_id=bg_diamond">Diamond</a>
instead. Pairwise alignment of proteins and translated DNA can be up to 100x-10,000x faster than BLAST.</strong>
class: warning

toolmsg_messages:

Check failure on line 27 in group_vars/sn06/toolmsg.yml

View workflow job for this annotation

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27:1 [key-duplicates] duplication of key "toolmsg_messages" in mapping
- tool_id: toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc
message: >
<strong>We recommend using
<a href="https://usegalaxy.eu/?tool_id=falco" target="_blank">
Falco
</a>
<a href="https://usegalaxy.eu/?tool_id=falco">Falco</a>
instead. Falco is 3 times faster and offers the same functionality as FASTQC.</strong>
class: warning
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