Compilation issues

[leenput]

Hi,

Thank you for developing this tool!

I’m currently experiencing some challenges with compiling LongTR (Ubuntu 24.04.1). As I am relatively new to bioinformatics, I’m finding it a bit difficult to troubleshoot on my own.

Here is one of the errors I encountered during compilation:
g++ -O3 -g -D__STDC_LIMIT_MACROS -D_FILE_OFFSET_BITS=64 -std=c++0x -DMACOSX -pthread -Ilib -Ilib/htslib/include -Ilib/spoa/include -o src/region.o -c src/region.cpp In file included from src/region.cpp:12: src/region.h:62:49: error: ‘uint32_t’ has not been declared 62 | void readRegions(const std::string& input_file, uint32_t max_regions, const std::string& chrom_limit, std::vector<Region>& regions, std::ostream& logger); | ^~~~~~~~ src/region.cpp:14:49: error: ‘uint32_t’ has not been declared 14 | void readRegions(const std::string& input_file, uint32_t max_regions, const std::string& chrom_limit, std::vector<Region>& regions, std::ostream& logger){ | ^~~~~~~~ make: *** [Makefile:142: src/region.o] Error 1

I was wondering if it might be possible to provide a pre-compiled binary or perhaps consider adding the tool to Conda?

Thank you in advance for your support!

[heliziii]

Hi,

Thank you for using LongTR and I apologize for my late reply. Can you please pull the latest version and check if this issue is now resolved? Note that in the new version, the format for the reference region bed file is slightly changed. Please refer to the description here for more information.

Best,
Helia