-
Notifications
You must be signed in to change notification settings - Fork 422
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Added few new functionalities to DIAMOND tool #5864
Open
SaimMomin12
wants to merge
13
commits into
galaxyproject:main
Choose a base branch
from
SaimMomin12:tools/diamond
base: main
Could not load branches
Branch not found: {{ refName }}
Loading
Could not load tags
Nothing to show
Loading
Are you sure you want to change the base?
Some commits from the old base branch may be removed from the timeline,
and old review comments may become outdated.
+216
−165
Open
Changes from 9 commits
Commits
Show all changes
13 commits
Select commit
Hold shift + click to select a range
d471432
Updating tools/diamond from version 2.0.15 to 2.1.3
5624945
Updating tools/diamond from version 2.1.3 to 2.1.4
60a4622
Updating tools/diamond from version 2.1.4 to 2.1.6
2ad3ab4
Updating tools/diamond from version 2.1.6 to 2.1.7
e44f995
Updating tools/diamond from version 2.1.7 to 2.1.8
79aa0f0
Updating tools/diamond from version 2.1.8 to 2.1.9
009c9a4
fix some linting error, make a few tests pass
bgruening 1f16e48
Merge branch 'main' into tools/diamond
bgruening 696e0aa
Added new functionalities to DIAMOND
SaimMomin12 ad7f2a8
Minor updations as per the PR Review
SaimMomin12 1339807
update to 2.1.10
bgruening be7249f
take over Anthony's fixes
bgruening 296061c
include previous failing test again
bgruening File filter
Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
There are no files selected for viewing
Large diffs are not rendered by default.
Oops, something went wrong.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Binary file not shown.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,3 +1,2 @@ | ||
sequence gi|5524211|gb|AAD44166.1| 99.6 284 0 1 1 283 1 284 1.44e-205 550 100 0 0 0 | ||
sequence gi|5524212|gb|AAD44167.1| 79.6 284 57 1 1 283 1 284 5.77e-150 409 100 0 0 0 | ||
shuffled * -1 -1 -1 -1 -1 -1 -1 -1 -1 -1 -1 * * * |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,2 @@ | ||
sequence gi|5524211|gb|AAD44166.1| 99.6 284 0 1 1 849 1 284 1.44e-205 550 | ||
sequence gi|5524212|gb|AAD44167.1| 79.6 284 57 1 1 849 1 284 5.77e-150 409 |
2 changes: 2 additions & 0 deletions
2
tools/diamond/test-data/diamond_results_soft_masking_memory.tabular
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,2 @@ | ||
sequence gi|5524211|gb|AAD44166.1| 99.6 284 0 1 1 849 1 284 1.44e-205 550 | ||
sequence gi|5524212|gb|AAD44167.1| 79.6 284 57 1 1 849 1 284 5.77e-150 409 |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,2 @@ | ||
sequence gi|5524211|gb|AAD44166.1| 99.6 284 0 1 1 849 1 284 1.44e-205 550 | ||
sequence gi|5524212|gb|AAD44167.1| 79.6 284 57 1 1 849 1 284 5.77e-150 409 |
Oops, something went wrong.
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
There was a problem hiding this comment.
Choose a reason for hiding this comment
The reason will be displayed to describe this comment to others. Learn more.
Have you checked where those parameters have been moved to? I remember there are still in Diamond, but maybe in another section or another tool?