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RabbitBio / RabbitQCPlus

A more efficient quality control tool for sequencing data
MIT License
21 stars 2 forks source link

zlib issues during installation #1

Closed JohnnyChen1113 closed 2 years ago

JohnnyChen1113 commented 2 years ago

``Hi!

I try to use the RabbitQCPlus on my PacBio HiFi reads QC step. But I cannot solve the zlib-related issues, so I have to reach out to ask for help from you...

  1. I installed the gcc 12.1.0, gxx 12.1.0 and zlib 1.2.12, libzlib 1.2.12, zlib-ng 2.0.6 by conda, but it doesn't work.
  2. So, I also tried to use yum install zlib and zlib-devel, but also failed.
  3. And then, I tried soft link or directly copying the zlib.h from where it was installed, but it also doesn't work.

The error msg attached below:

g++ -c src/FastxStream.cpp -o obj/FastxStream.o -DVec256 -std=c++11 -I./ -I./common -march=native  -g -O3  -w -fopenmp
In file included from src/FastxStream.cpp:16:
src/FastxStream.h:21:10: fatal error: zlib.h: No such file or directory
   21 | #include <zlib.h>  //support gziped files, functional but inefficient
      |          ^~~~~~~~
compilation terminated.
make: *** [obj/FastxStream.o] Error 1

The system I used is centOS 7, Architecture is x86_64. If possible, please give me a hand. Thanks a lot!

yanlifeng commented 2 years ago

Hi! This problem may be caused by a different default installation. The most direct and effective solution is to modify CXXFLAGS in the Makefile and manually include the zlib library via -I.