S

Staden Package

Settings | Report Duplicate

0

I Use This!

Activity Not Available

Commits : Listings

Analyzed 5 months ago. based on code collected over 3 years ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
Dec 18, 2019 — Dec 18, 2020 Showing page 10 of 56 Search / Filter on:
When splitting contigs we now name the newly produce right-hand side contig with a derived name (#1, #2, etc).	jkbonfield	More...				over 15 years ago
Fixed the window title to display the contig name(s).	jkbonfield	More...				over 15 years ago
Added temporary fix to shut down the contig selector when making a join. It's not what I want to do, but it works around the bug (and crash) that I'm not yet sending the appropriate notifications to force the plots to update upon a join.	jkbonfield	More...				over 15 years ago
Added reference counts and an inactive flag to the contig registration scheme. This allows us to protect against sending a notification which may cause the list of registered items to change, making it complex to iterate through all items to notify.	jkbonfield	More...				over 15 years ago
Removed a heinous programming crime of returning the address of a local variable.	jkbonfield	More...				over 15 years ago
Protect against a match in find repeats extending 1 past the end of the sequence. I'm not sure why this occurs, but at least we handle the problem gracefully now.	jkbonfield	More...				over 15 years ago
Bug fix in break_contig_reparent_seqs: we no longer die when finding a bin with no Range data.	jkbonfield	More...				over 15 years ago
Added a yflip option for changing the Y coordinate arithmetic. We use this in the gap5 join editor to flip one contig to get the two consensus sequences in the middle.	jkbonfield	More...				over 15 years ago
Fixed break contig: when sequences were moved from one bin to another bin I forgot to edit the sequence itself to relink the bin pointer to the new parent.	jkbonfield	More...				over 15 years ago
Better error checking in the status line updates.	jkbonfield	More...				over 15 years ago
Make sure we always set xx->link->lockOffset in set_displayPos for a join editor, even if lock is turned off.	jkbonfield	More...				over 15 years ago
Added result_manager.tcl	jkbonfield	More...				over 15 years ago
gap_defs vs gap5_defs changes	jkbonfield	More...				over 15 years ago
* empty log message *	jkbonfield	More...				over 15 years ago
Fixed parsing in the reg_init_args function. This fix is part of the contig selector zooming/scrolling bug fixes.	jkbonfield	More...				over 15 years ago
Added first draft of the Break Contig function.	jkbonfield	More...				over 15 years ago
Bug fixes to zooming and scrolling.	jkbonfield	More...				over 15 years ago
Now shutdowns the editor windows after a join.	jkbonfield	More...				over 15 years ago
make_consensus() now allocates memory for the consensus itself, rather than relying on something passed in. This removes the need to use a max_consensus parameter.	jkbonfield	More...				over 15 years ago
Huge tidyup - more Gap5 now than a hacked gap4	jkbonfield	More...				over 15 years ago
Better error handling and added code to cope for when Tcl conversion from string fails for some reason (unknown why).	jkbonfield	More...				over 15 years ago
Added an install target	jkbonfield	More...				over 15 years ago
Changed dump_qcal so it handles negative log-odds scores. In practice I've never seen these occur with the 1.0 solexa pipeline release though.	jkbonfield	More...				over 15 years ago
* empty log message *	jkbonfield	More...				over 15 years ago
Removal of debugging output.	jkbonfield	More...				over 15 years ago
* empty log message *	jkbonfield	More...				over 15 years ago
Fixed the add_qcal_chunk code so it doesn't assume that it can strlen the binary quality string.	jkbonfield	More...				over 15 years ago
* empty log message *	jkbonfield	More...				over 15 years ago
Merged in changes from Steven Leonard - Call srf_destroy before exiting in various failure cases. This has no real impact except to make it easier to look for real memory leaks.	jkbonfield	More...				over 15 years ago
Merged in changes from Steven Leonard. - Extra options were added to provide explicit control over the read names (whether to add /1, /2, ...) and filenames. - Renamed -p (primer) as -e (explicit).	jkbonfield	More...				over 15 years ago

←
1
2
…
6
7
8
9
10
11
12
13
14
…
55
56
→