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Eric Coissac
2023-03-29 11:16:25 +07:00
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Release-notes.md
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## Ongoing changes ## Ongoing changes
### Compiler change
*OBItools4* requires now GO 1.20 to compile.
### New features ### New features
- Add the possibility for looking pattern with indels. This has been added to `obimultiplex` - Add the possibility for looking pattern with indels. This has been added to `obimultiplex`
through the `--with-indels` option. through the **--with-indels** option.
- Every obitools command has a **--pprof** option making the command publishing a profiling web
site available at the address : [http://localhost:8080/debug/pprof/](http://localhost:8080/debug/pprof/)
- A new `obiconsensus` command has been added. It is a prototype. It aims to build a consensus sequence
from a set of reads. The consensus is estimated for all the sequences contained in the input file.
If several input files, or a directory name are provided the result contains a consensus per file.
The id of the sequence is the name of the input file depleted of its directory name and of all its
extensions.
### Enhancement ### Enhancement
- Add support for IUPAC DNA code into the DNA sequence LCS computation and an end free gap mode. - Add support for IUPAC DNA code into the DNA sequence LCS computation and an end free gap mode.
This impact `obitag` and `obimultiplex` in the `--with-indels` mode. This impact `obitag` and `obimultiplex` in the **--with-indels** mode.
- Print the synopsis of the command when an error is done by the user at typing the command - Print the synopsis of the command when an error is done by the user at typing the command
- Reduced the memory copy and allocation during the sequence creation.
### Corrected bugs ### Corrected bugs
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- Patch a bug leading with some programs to crash because of : "*empty batch pushed on the channel*" - Patch a bug leading with some programs to crash because of : "*empty batch pushed on the channel*"
- Patch a bug when directory names are used as input data name preventing the system to actually - Patch a bug when directory names are used as input data name preventing the system to actually
analyze the collected files. analyze the collected files.
- Make the `--help` or `-h` options working when mandatory options are declared - Make the **--help** or **-h** options working when mandatory options are declared
- In `obimultiplex` correct a bug leading to a wrong report of the count of reverse mismatch for - In `obimultiplex` correct a bug leading to a wrong report of the count of reverse mismatch for
sequences in reverse direction. sequences in reverse direction.
- In `obimultiplex` correct a bug when not enough space exist between the extremities of the sequence
and the primer matches to fit the sample identification tag
## March 7th, 2023. Release 4.0.1 ## March 7th, 2023. Release 4.0.1