Make error
GuiSeSanz opened this issue · comments
Hello Dr. Lin,
I'm having some troubles to install the PhyloCSF.
I followed the steps in the readme, but during the make command, I run into this issue:
/PhyloCSF$ make
make -C lib/CamlPaml reinstall
make[1]: Entering directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
make uninstall
make[2]: Entering directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
ocamlfind remove CamlPaml
Removed /home/nostromo/.opam/4.05.0/lib/CamlPaml/META
Removed /home/nostromo/.opam/4.05.0/lib/CamlPaml
make[2]: Leaving directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
make install
make[2]: Entering directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
ocamlbuild -use-ocamlfind CamlPaml.cma CamlPaml.cmxa
+ ocamlfind ocamlc -c -g -package gsl -pp ocaml+twt -o Code.cmo Code.ml
File "Code.ml", line 55, characters 11-24:
Warning 3: deprecated: String.create
Use Bytes.create instead.
File "Code.ml", line 57, characters 3-27:
Warning 3: deprecated: String.set
Use Bytes.set instead.
File "Code.ml", line 193, characters 32-46:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
File "Code.ml", line 193, characters 50-64:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
File "Code.ml", line 193, characters 68-82:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
+ ocamlfind ocamlopt -c -g -package gsl -for-pack CamlPaml -pp ocaml+twt -o Code.cmx Code.ml
File "Code.ml", line 55, characters 11-24:
Warning 3: deprecated: String.create
Use Bytes.create instead.
File "Code.ml", line 57, characters 3-27:
Warning 3: deprecated: String.set
Use Bytes.set instead.
File "Code.ml", line 193, characters 32-46:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
File "Code.ml", line 193, characters 50-64:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
File "Code.ml", line 193, characters 68-82:
Warning 3: deprecated: Char.uppercase
Use Char.uppercase_ascii instead.
Finished, 72 targets (0 cached) in 00:00:02.
ocamlfind install CamlPaml META _build/CamlPaml.cmi _build/CamlPaml.cma _build/CamlPaml.cmxa _build/CamlPaml.a
Installed /home/nostromo/.opam/4.05.0/lib/CamlPaml/CamlPaml.a
Installed /home/nostromo/.opam/4.05.0/lib/CamlPaml/CamlPaml.cmxa
Installed /home/nostromo/.opam/4.05.0/lib/CamlPaml/CamlPaml.cma
Installed /home/nostromo/.opam/4.05.0/lib/CamlPaml/CamlPaml.cmi
Installed /home/nostromo/.opam/4.05.0/lib/CamlPaml/META
make[2]: Leaving directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
make[1]: Leaving directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/lib/CamlPaml'
make -C src clean
make[1]: Entering directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/src'
rm -f *~
ocamlbuild -clean
Finished, 0 targets (0 cached) in 00:00:00.
00:00:00 0 (0 ) STARTING -------- |make[1]: Leaving directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/src'
make -C src
make[1]: Entering directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/src'
rm -f ForkMaybe.ml
ln -s ForkNo.ml ForkMaybe.ml
ocamlbuild -use-ocamlfind PhyloCSF.native
+ ocamlfind ocamlopt -c -g -package batteries -package CamlPaml -pp ocaml+twt -o PhyloCSFModel.cmx PhyloCSFModel.ml
File "_none_", line 1:
Warning 58: no cmx file was found in path for module CamlPaml, and its interface was not compiled with -opaque
+ ocamlfind ocamlopt -c -g -package batteries -package CamlPaml -pp ocaml+twt -o ECM.cmx ECM.ml
File "_none_", line 1:
Warning 58: no cmx file was found in path for module CamlPaml, and its interface was not compiled with -opaque
+ ocamlfind ocamlopt -c -g -package batteries -package CamlPaml -pp ocaml+twt -o OmegaModel.cmx OmegaModel.ml
File "_none_", line 1:
Warning 58: no cmx file was found in path for module CamlPaml, and its interface was not compiled with -opaque
+ ocamlfind ocamlopt -c -g -package batteries -package CamlPaml -pp ocaml+twt -o PhyloCSF.cmx PhyloCSF.ml
File "_none_", line 1:
Warning 58: no cmx file was found in path for module CamlPaml, and its interface was not compiled with -opaque
+ ocamlfind ocamlopt -linkpkg -g -package batteries -package CamlPaml ECM.cmx ForkMaybe.cmx PhyloCSFModel.cmx OmegaModel.cmx PhyloCSF.cmx -o PhyloCSF.native
/home/nostromo/.opam/4.05.0/lib/gsl/libgsl_stubs.a(mlgsl_randist.o): In function `ml_gsl_ran_multivariate_gaussian':
/home/nostromo/.opam/4.05.0/build/gsl.1.21.0/_build/default/src/mlgsl_randist.c:56: undefined reference to `gsl_ran_multivariate_gaussian'
collect2: error: ld returned 1 exit status
File "caml_startup", line 1:
Error: Error during linking
Command exited with code 2.
Compilation unsuccessful after building 16 targets (0 cached) in 00:00:01.
make[1]: *** [all] Error 10
make[1]: Leaving directory `/home/nostromo/data/gserranos/Programs/PhyloCSF2/PhyloCSF-20121028/PhyloCSF/src'
make: *** [PhyloCSF] Error 2
I don't know what to do.....
I meet the same question with you，have you solved it？
I've no idea about what can be causing this problem...
I'm waiting some help from the developers!
I got the same problem, any solution to this?