Comments (2)
samhunter
commented on July 30, 2024
Hi @amphioxus thanks for reporting this! I'm glad you like HTStream.
Do you happen to know if you used statically linked libraries when you compiled from source (e.g. -DBUILD_STATIC_BIN=ON)? I ask because I include statically linked executables as part of the release (https://github.com/s4hts/HTStream/releases/download/v1.3.3/HTStream_v1.3.3.tar.gz), and now I wonder if they will stop working under 22.04.
Either way it seems reasonable to upgrade HTStream so that it uses the latest version of googletest.
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amphioxus
commented on July 30, 2024
I didn't specifically use the -DBUILD_STATIC_BIN=ON flag when building, so I'm guessing it's using dynamically linked libraries. I just tested the 1.3.3. release you linked above and it works fine on 22.04.
Side note: The reason I built it from source in the first place was that the report JSON structure of the 1.3.0 release was slightly different than the one of the version I encountered when I took a class at UC Davis. (I thought 1.3.0 was the latest release because it’s used for the instructions on https://s4hts.github.io/HTStream/) The newer v1.3.3 release fixes the JSON issue as well for me, so I don't even have a need for building from source now. Thanks!
… On Oct 18, 2022, at 10:50 PM, Sam Hunter ***@***.***> wrote:
Hi @amphioxus <https://github.com/amphioxus> thanks for reporting this! I'm glad you like HTStream.
Do you happen to know if you used statically linked libraries when you compiled from source (e.g. -DBUILD_STATIC_BIN=ON)? I ask because I include statically linked executables as part of the release (https://github.com/s4hts/HTStream/releases/download/v1.3.3/HTStream_v1.3.3.tar.gz <https://github.com/s4hts/HTStream/releases/download/v1.3.3/HTStream_v1.3.3.tar.gz>), and now I wonder if they will stop working under 22.04.
Either way it seems reasonable to upgrade HTStream so that it uses the latest version of googletest.
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Related Issues (20)
- hts_SeqScreener enhancements for bigger references
- hts_Primer doesn't report fragments and basepairs_in
- Feature downgrade actually, remove -a option from SuperD
- -m (minLength) option removed from hts_QWindowTrim, but does not exist in hts_CutTrim HOT 3
- Flag use HOT 1
- Is "percentage-hits" calculated properly for SeqScreener? HOT 1
- SuperDeduper ignoring reads HOT 6
- hts_Primers doesn't seem to read multi-fasta files correctly
- hts_Primers - error message HOT 4
- Version incorrect and CMAKE_PREFIX_PATH not working HOT 5
- How to cite HTStream? :-) HOT 2
- hts_LengthFilter is missing from the documentation!
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- Add to CutTrim, trim to length from 5' or 3'
- pointer error in hts_Stats HOT 1
- Remaining adapter sequence
- Order of input files to hts_SeqScreener changes hits reported when R1/R2 lengths differ
- "no such file or directory" error HOT 2
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