* installing *source* package ‘xbreed’ ...
** package ‘xbreed’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using Fortran compiler: ‘GNU Fortran (GCC) 12.2.0’
using SDK: ‘MacOSX11.3.sdk’
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c cf.f90 -o cf.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c hp.f90 -o hp.o
hp.f90:43:14:
43 | INTEGER::sex
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:80:10:
80 | counter=0
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:89:8:
89 | END IF
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:93:20:
93 | Start_pop(j,i+1)=2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:103:10:
103 | counter=0
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:109:18:
109 | Start_pop(j,i)=1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:112:8:
112 | END IF
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:114:20:
114 | Start_pop(j,i+1)=1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:116:20:
116 | Start_pop(j,i+1)=2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:121:12:
121 | END SELECT
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:194:22:
194 | Tempo_pois=Start_pop
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:483:37:
483 | output(i,1:sh1*2)=recieve(i,1:sh1*2)
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
hp.f90:99:8:
99 | prob(i)=arglaf_F
| 1
Warning: Possible change of value in conversion from REAL(8) to REAL(4) at (1) [-Wconversion]
hp.f90:495:33:
495 | subroutine intpr(label, nchar, da, ndata)
| 1
Warning: Unused dummy argument ‘da’ at (1) [-Wunused-dummy-argument]
hp.f90:495:40:
495 | subroutine intpr(label, nchar, da, ndata)
| 1
Warning: Unused dummy argument ‘ndata’ at (1) [-Wunused-dummy-argument]
hp.f90:11:23:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘allele’ declared at (1) [-Wunused-variable]
hp.f90:47:46:
47 | TYPE (First), ALLOCATABLE,DIMENSION(:) :: Anim
| 1
Warning: Unused variable ‘anim’ declared at (1) [-Wunused-variable]
hp.f90:20:62:
20 | INTEGER,ALLOCATABLE,DIMENSION(:,:):: Males_M_Hap,Females_M_Hap
| 1
Warning: Unused variable ‘females_m_hap’ declared at (1) [-Wunused-variable]
hp.f90:12:21:
12 | REAL :: start, finish
| 1
Warning: Unused variable ‘finish’ declared at (1) [-Wunused-variable]
hp.f90:23:49:
23 | INTEGER,ALLOCATABLE,DIMENSION(:,:):: Haplo_prod_F
| 1
Warning: Unused variable ‘haplo_prod_f’ declared at (1) [-Wunused-variable]
hp.f90:22:49:
22 | INTEGER,ALLOCATABLE,DIMENSION(:,:):: Haplo_prod_M
| 1
Warning: Unused variable ‘haplo_prod_m’ declared at (1) [-Wunused-variable]
hp.f90:11:36:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘k’ declared at (1) [-Wunused-variable]
hp.f90:20:48:
20 | INTEGER,ALLOCATABLE,DIMENSION(:,:):: Males_M_Hap,Females_M_Hap
| 1
Warning: Unused variable ‘males_m_hap’ declared at (1) [-Wunused-variable]
hp.f90:27:53:
27 | INTEGER,DIMENSION(:,:), ALLOCATABLE:: Offspring_2_str
| 1
Warning: Unused variable ‘offspring_2_str’ declared at (1) [-Wunused-variable]
hp.f90:11:51:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘popsze’ declared at (1) [-Wunused-variable]
hp.f90:36:18:
36 | REAL::r,RandomReal
| 1
Warning: Unused variable ‘randomreal’ declared at (1) [-Wunused-variable]
hp.f90:24:39:
24 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1,seq2,TemC2,TemC1
| 1
Warning: Unused variable ‘seq1’ declared at (1) [-Wunused-variable]
hp.f90:25:43:
25 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1_mtg,seq2_mtg
| 1
Warning: Unused variable ‘seq1_mtg’ declared at (1) [-Wunused-variable]
hp.f90:24:44:
24 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1,seq2,TemC2,TemC1
| 1
Warning: Unused variable ‘seq2’ declared at (1) [-Wunused-variable]
hp.f90:25:52:
25 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1_mtg,seq2_mtg
| 1
Warning: Unused variable ‘seq2_mtg’ declared at (1) [-Wunused-variable]
hp.f90:11:87:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘sh1’ declared at (1) [-Wunused-variable]
hp.f90:11:91:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘sh2’ declared at (1) [-Wunused-variable]
hp.f90:11:95:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘sh3’ declared at (1) [-Wunused-variable]
hp.f90:11:99:
11 | INTEGER::nloci,i,allele,in_nloci,j,k,counter,popsze,nalle,nsire,ad1,ad2,gen_counter,sh1,sh2,sh3,sh4,nchr
| 1
Warning: Unused variable ‘sh4’ declared at (1) [-Wunused-variable]
hp.f90:12:13:
12 | REAL :: start, finish
| 1
Warning: Unused variable ‘start’ declared at (1) [-Wunused-variable]
hp.f90:24:56:
24 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1,seq2,TemC2,TemC1
| 1
Warning: Unused variable ‘temc1’ declared at (1) [-Wunused-variable]
hp.f90:24:50:
24 | INTEGER,ALLOCATABLE,DIMENSION(:):: seq1,seq2,TemC2,TemC1
| 1
Warning: Unused variable ‘temc2’ declared at (1) [-Wunused-variable]
hp.f90:416:14:
416 | INTEGER :: ISH,ls
| 1
Warning: Unused variable ‘ish’ declared at (1) [-Wunused-variable]
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c ld.f90 -o ld.o
ld.f90:79:25:
79 | ld_data(paircounter,1)= paircounter
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:81:25:
81 | ld_data(paircounter,2)= p1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:82:25:
82 | ld_data(paircounter,3)= q1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:83:25:
83 | ld_data(paircounter,4)= p2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:84:25:
84 | ld_data(paircounter,5)= q2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:86:25:
86 | ld_data(paircounter,6)= hap_11
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:87:25:
87 | ld_data(paircounter,7)= hap_12
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:88:25:
88 | ld_data(paircounter,8)= hap_21
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:89:25:
89 | ld_data(paircounter,9)= hap_22
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:91:27:
91 | ld_data(paircounter,10)=D
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:92:27:
92 | ld_data(paircounter,11)=r
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:93:28:
93 | ld_data(paircounter,12)=r2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:149:5:
149 | t=4
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:171:25:
171 | ld_data(paircounter,1)= paircounter
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:173:25:
173 | ld_data(paircounter,2)= p1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:174:25:
174 | ld_data(paircounter,3)= q1
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:175:25:
175 | ld_data(paircounter,4)= p2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:176:25:
176 | ld_data(paircounter,5)= q2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:178:25:
178 | ld_data(paircounter,6)= hap_11
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:179:25:
179 | ld_data(paircounter,7)= hap_12
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:180:25:
180 | ld_data(paircounter,8)= hap_21
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:181:25:
181 | ld_data(paircounter,9)= hap_22
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:183:27:
183 | ld_data(paircounter,10)=D
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:184:27:
184 | ld_data(paircounter,11)=r
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:185:27:
185 | ld_data(paircounter,12)=r2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:190:7:
190 | t=t+2
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:271:30:
271 | END SUBROUTINE calc_hap_freq
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
ld.f90:9:26:
9 | INTEGER::i,j,nloci,counter,a,b,c,t,sth,paircounter
| 1
Warning: Unused variable ‘counter’ declared at (1) [-Wunused-variable]
ld.f90:10:23:
10 | REAL :: outfreq,mean_LD
| 1
Warning: Unused variable ‘mean_ld’ declared at (1) [-Wunused-variable]
gfortran -arch x86_64 -fPIC -Wall -g -O2 -c sh.f90 -o sh.o
sh.f90:38:54:
38 | INTEGER,ALLOCATABLE,DIMENSION(:,:):: temp_config_chr
| 1
Warning: Nonconforming tab character at (1) [-Wtabs]
sh.f90:36:52:
36 | INTEGER::a1,b1,T1,T2,k1,shom,nrec,ad1,ad2,tcount,ali
| 1
Warning: Unused variable ‘ali’ declared at (1) [-Wunused-variable]
sh.f90:27:21:
27 | REAL :: start, finish
| 1
Warning: Unused variable ‘finish’ declared at (1) [-Wunused-variable]
sh.f90:27:13:
27 | REAL :: start, finish
| 1
Warning: Unused variable ‘start’ declared at (1) [-Wunused-variable]
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o xbreed.so cf.o hp.o init.o ld.o sh.o -L/opt/gfortran/lib/gcc/x86_64-apple-darwin20.0/12.2.0 -L/opt/gfortran/lib -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/xbreed.Rcheck/00LOCK-xbreed/00new/xbreed/libs
** generating debug symbols (dSYM)
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (xbreed)