2023-09-10T08:09:29,048 Created temporary directory: /tmp/pip-build-tracker-k7q_a9zd 2023-09-10T08:09:29,049 Initialized build tracking at /tmp/pip-build-tracker-k7q_a9zd 2023-09-10T08:09:29,050 Created build tracker: /tmp/pip-build-tracker-k7q_a9zd 2023-09-10T08:09:29,050 Entered build tracker: /tmp/pip-build-tracker-k7q_a9zd 2023-09-10T08:09:29,051 Created temporary directory: /tmp/pip-wheel-4stfji03 2023-09-10T08:09:29,054 Created temporary directory: /tmp/pip-ephem-wheel-cache-aylj85eh 2023-09-10T08:09:29,076 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2023-09-10T08:09:29,079 2 location(s) to search for versions of pastml: 2023-09-10T08:09:29,079 * https://pypi.org/simple/pastml/ 2023-09-10T08:09:29,079 * https://www.piwheels.org/simple/pastml/ 2023-09-10T08:09:29,080 Fetching project page and analyzing links: https://pypi.org/simple/pastml/ 2023-09-10T08:09:29,081 Getting page https://pypi.org/simple/pastml/ 2023-09-10T08:09:29,083 Found index url 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https://www.piwheels.org/simple/pastml/pastml-0.3-cp35-cp35m-linux_armv6l.whl#sha256=35d325796ee3f362f5758146d349c5301730db57c98e4226af74866a07a1604c (from https://www.piwheels.org/simple/pastml/) 2023-09-10T08:09:30,770 Skipping link: No binaries permitted for pastml: https://www.piwheels.org/simple/pastml/pastml-0.3-cp35-cp35m-linux_armv7l.whl#sha256=35d325796ee3f362f5758146d349c5301730db57c98e4226af74866a07a1604c (from https://www.piwheels.org/simple/pastml/) 2023-09-10T08:09:30,770 Skipping link: not a file: https://www.piwheels.org/simple/pastml/ 2023-09-10T08:09:30,771 Skipping link: not a file: https://pypi.org/simple/pastml/ 2023-09-10T08:09:30,801 Given no hashes to check 1 links for project 'pastml': discarding no candidates 2023-09-10T08:09:30,820 Collecting pastml==0.3.1 2023-09-10T08:09:30,822 Created temporary directory: /tmp/pip-unpack-goyn4_2o 2023-09-10T08:09:31,670 Downloading pastml-0.3.1.tar.gz (24 kB) 2023-09-10T08:09:31,755 Added pastml==0.3.1 from https://files.pythonhosted.org/packages/33/70/f984fae27c11ce686c719eedeb84741ad85bd513a759a854bb0ea4f7bd50/pastml-0.3.1.tar.gz to build tracker '/tmp/pip-build-tracker-k7q_a9zd' 2023-09-10T08:09:31,757 Running setup.py (path:/tmp/pip-wheel-4stfji03/pastml_d6d57bfb3a0c45e78a5fb21affce12ed/setup.py) egg_info for package pastml 2023-09-10T08:09:31,759 Created temporary directory: /tmp/pip-pip-egg-info-qnhyv1na 2023-09-10T08:09:31,760 Preparing metadata (setup.py): started 2023-09-10T08:09:31,762 Running command python setup.py egg_info 2023-09-10T08:09:32,257 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'platform' 2023-09-10T08:09:32,257 warnings.warn(msg) 2023-09-10T08:09:32,988 Preparing metadata (setup.py): finished with status 'done' 2023-09-10T08:09:32,992 Source in /tmp/pip-wheel-4stfji03/pastml_d6d57bfb3a0c45e78a5fb21affce12ed has version 0.3.1, which satisfies requirement pastml==0.3.1 from https://files.pythonhosted.org/packages/33/70/f984fae27c11ce686c719eedeb84741ad85bd513a759a854bb0ea4f7bd50/pastml-0.3.1.tar.gz 2023-09-10T08:09:32,993 Removed pastml==0.3.1 from https://files.pythonhosted.org/packages/33/70/f984fae27c11ce686c719eedeb84741ad85bd513a759a854bb0ea4f7bd50/pastml-0.3.1.tar.gz from build tracker '/tmp/pip-build-tracker-k7q_a9zd' 2023-09-10T08:09:32,997 Created temporary directory: /tmp/pip-unpack-tg7lkvas 2023-09-10T08:09:32,998 Created temporary directory: /tmp/pip-unpack-jvl8x814 2023-09-10T08:09:33,000 Building wheels for collected packages: pastml 2023-09-10T08:09:33,005 Created temporary directory: /tmp/pip-wheel-kc2mtsny 2023-09-10T08:09:33,005 Building wheel for pastml (setup.py): started 2023-09-10T08:09:33,006 Destination directory: /tmp/pip-wheel-kc2mtsny 2023-09-10T08:09:33,007 Running command python setup.py bdist_wheel 2023-09-10T08:09:33,450 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/dist.py:265: UserWarning: Unknown distribution option: 'platform' 2023-09-10T08:09:33,450 warnings.warn(msg) 2023-09-10T08:09:34,696 fletcher.c: In function ‘gradient’: 2023-09-10T08:09:34,696 fletcher.c:21:27: warning: unused variable ‘minuslnl’ [-Wunused-variable] 2023-09-10T08:09:34,697 21 | double pluslnl, oldlnl, minuslnl, tmp_p[n], sum=0.0; 2023-09-10T08:09:34,698 | ^~~~~~~~ 2023-09-10T08:09:34,700 fletcher.c: In function ‘mnbrak’: 2023-09-10T08:09:34,701 fletcher.c:143:25: warning: passing argument 4 of ‘SHFT’ from incompatible pointer type [-Wincompatible-pointer-types] 2023-09-10T08:09:34,701 143 | SHFT(bx,cx,&u,&bdum); 2023-09-10T08:09:34,702 | ^~~~~ 2023-09-10T08:09:34,702 | | 2023-09-10T08:09:34,703 | double ** 2023-09-10T08:09:34,703 fletcher.c:11:52: note: expected ‘double *’ but argument is of type ‘double **’ 2023-09-10T08:09:34,704 11 | void SHFT(double* a, double* b, double* c, double* d){ 2023-09-10T08:09:34,704 | ~~~~~~~~^ 2023-09-10T08:09:34,705 fletcher.c:146:26: warning: passing argument 4 of ‘SHFT’ from incompatible pointer type [-Wincompatible-pointer-types] 2023-09-10T08:09:34,705 146 | SHFT(fb,fc,&fu,&cdum); 2023-09-10T08:09:34,706 | ^~~~~ 2023-09-10T08:09:34,706 | | 2023-09-10T08:09:34,707 | double ** 2023-09-10T08:09:34,707 fletcher.c:11:52: note: expected ‘double *’ but argument is of type ‘double **’ 2023-09-10T08:09:34,708 11 | void SHFT(double* a, double* b, double* c, double* d){ 2023-09-10T08:09:34,709 | ~~~~~~~~^ 2023-09-10T08:09:34,710 fletcher.c: In function ‘linmin’: 2023-09-10T08:09:34,711 fletcher.c:235:45: warning: unused variable ‘x_sum’ [-Wunused-variable] 2023-09-10T08:09:34,711 235 | double xx,xmin,fx,fb,fa,bx,ax,*pold,tmp_x,x_sum,f_check; 2023-09-10T08:09:34,712 | ^~~~~ 2023-09-10T08:09:34,712 fletcher.c:235:39: warning: unused variable ‘tmp_x’ [-Wunused-variable] 2023-09-10T08:09:34,713 235 | double xx,xmin,fx,fb,fa,bx,ax,*pold,tmp_x,x_sum,f_check; 2023-09-10T08:09:34,713 | ^~~~~ 2023-09-10T08:09:34,714 fletcher.c:234:7: warning: unused variable ‘i’ [-Wunused-variable] 2023-09-10T08:09:34,714 234 | int i,j; 2023-09-10T08:09:34,715 | ^ 2023-09-10T08:09:34,715 fletcher.c: In function ‘frprmn’: 2023-09-10T08:09:34,716 fletcher.c:271:23: warning: unused variable ‘sum’ [-Wunused-variable] 2023-09-10T08:09:34,717 271 | double *g, *h, *xi, sum; 2023-09-10T08:09:34,717 | ^~~ 2023-09-10T08:09:34,719 In file included from fletcher.c:2: 2023-09-10T08:09:34,720 nrutil.h: At top level: 2023-09-10T08:09:34,720 nrutil.h:38:22: warning: ‘iminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,721 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:34,721 | ^~~~~~~~ 2023-09-10T08:09:34,722 nrutil.h:38:12: warning: ‘iminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,722 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:34,723 | ^~~~~~~~ 2023-09-10T08:09:34,724 nrutil.h:34:22: warning: ‘imaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,724 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:34,725 | ^~~~~~~~ 2023-09-10T08:09:34,725 nrutil.h:34:12: warning: ‘imaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,726 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:34,727 | ^~~~~~~~ 2023-09-10T08:09:34,727 nrutil.h:30:23: warning: ‘lminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,728 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:34,728 | ^~~~~~~~ 2023-09-10T08:09:34,729 nrutil.h:30:13: warning: ‘lminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,729 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:34,730 | ^~~~~~~~ 2023-09-10T08:09:34,730 nrutil.h:26:23: warning: ‘lmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,731 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:34,731 | ^~~~~~~~ 2023-09-10T08:09:34,732 nrutil.h:26:13: warning: ‘lmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,732 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:34,733 | ^~~~~~~~ 2023-09-10T08:09:34,734 nrutil.h:22:24: warning: ‘minarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,734 22 | static double minarg1, minarg2; 2023-09-10T08:09:34,735 | ^~~~~~~ 2023-09-10T08:09:34,735 nrutil.h:22:15: warning: ‘minarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,736 22 | static double minarg1, minarg2; 2023-09-10T08:09:34,736 | ^~~~~~~ 2023-09-10T08:09:34,737 nrutil.h:14:25: warning: ‘dminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,737 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:34,738 | ^~~~~~~~ 2023-09-10T08:09:34,738 nrutil.h:14:15: warning: ‘dminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,739 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:34,739 | ^~~~~~~~ 2023-09-10T08:09:34,740 nrutil.h:10:25: warning: ‘dmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,741 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:34,741 | ^~~~~~~~ 2023-09-10T08:09:34,742 nrutil.h:10:15: warning: ‘dmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,742 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:34,743 | ^~~~~~~~ 2023-09-10T08:09:34,743 nrutil.h:7:15: warning: ‘dsqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,744 7 | static double dsqrarg; 2023-09-10T08:09:34,745 | ^~~~~~~ 2023-09-10T08:09:34,745 nrutil.h:4:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:34,746 4 | static double sqrarg; 2023-09-10T08:09:34,746 | ^~~~~~ 2023-09-10T08:09:35,053 fletcher.c: In function ‘brent’: 2023-09-10T08:09:35,053 fletcher.c:191:32: warning: ‘e’ may be used uninitialized [-Wmaybe-uninitialized] 2023-09-10T08:09:35,054 191 | if (fabs(p) >= fabs(0.5*q*etemp) || p <= q*(a-x) || p >= q*(b-x)) { 2023-09-10T08:09:35,055 | ~~~~~^~~~~~ 2023-09-10T08:09:35,055 fletcher.c:169:10: note: ‘e’ was declared here 2023-09-10T08:09:35,056 169 | double e=0.0; 2023-09-10T08:09:35,056 | ^ 2023-09-10T08:09:35,518 fletcherJC.c: In function ‘gradientJC’: 2023-09-10T08:09:35,518 fletcherJC.c:21:47: warning: variable ‘sum’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:35,519 21 | double pluslnl, oldlnl, minuslnl, tmp_p[n], sum=0.0, *likp; 2023-09-10T08:09:35,520 | ^~~ 2023-09-10T08:09:35,520 fletcherJC.c:21:37: warning: unused variable ‘tmp_p’ [-Wunused-variable] 2023-09-10T08:09:35,521 21 | double pluslnl, oldlnl, minuslnl, tmp_p[n], sum=0.0, *likp; 2023-09-10T08:09:35,521 | ^~~~~ 2023-09-10T08:09:35,522 fletcherJC.c:21:27: warning: unused variable ‘minuslnl’ [-Wunused-variable] 2023-09-10T08:09:35,523 21 | double pluslnl, oldlnl, minuslnl, tmp_p[n], sum=0.0, *likp; 2023-09-10T08:09:35,524 | ^~~~~~~~ 2023-09-10T08:09:35,524 fletcherJC.c: In function ‘f1dimJC’: 2023-09-10T08:09:35,525 fletcherJC.c:54:32: warning: variable ‘sumfreq’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:35,525 54 | double f,*xt,x_sum=0.0,tmp_x,sumfreq,e1,e2,exp1,exp2,*likp; 2023-09-10T08:09:35,526 | ^~~~~~~ 2023-09-10T08:09:35,526 fletcherJC.c:54:26: warning: unused variable ‘tmp_x’ [-Wunused-variable] 2023-09-10T08:09:35,527 54 | double f,*xt,x_sum=0.0,tmp_x,sumfreq,e1,e2,exp1,exp2,*likp; 2023-09-10T08:09:35,527 | ^~~~~ 2023-09-10T08:09:35,528 fletcherJC.c:54:16: warning: variable ‘x_sum’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:35,528 54 | double f,*xt,x_sum=0.0,tmp_x,sumfreq,e1,e2,exp1,exp2,*likp; 2023-09-10T08:09:35,529 | ^~~~~ 2023-09-10T08:09:35,529 fletcherJC.c: In function ‘mnbrakJC’: 2023-09-10T08:09:35,530 fletcherJC.c:133:26: warning: passing argument 4 of ‘SHFT2’ from incompatible pointer type [-Wincompatible-pointer-types] 2023-09-10T08:09:35,531 133 | SHFT2(bx,cx,&u,&bdum); 2023-09-10T08:09:35,532 | ^~~~~ 2023-09-10T08:09:35,532 | | 2023-09-10T08:09:35,533 | double ** 2023-09-10T08:09:35,534 fletcherJC.c:11:53: note: expected ‘double *’ but argument is of type ‘double **’ 2023-09-10T08:09:35,534 11 | void SHFT2(double* a, double* b, double* c, double* d){ 2023-09-10T08:09:35,535 | ~~~~~~~~^ 2023-09-10T08:09:35,535 fletcherJC.c:136:27: warning: passing argument 4 of ‘SHFT2’ from incompatible pointer type [-Wincompatible-pointer-types] 2023-09-10T08:09:35,536 136 | SHFT2(fb,fc,&fu,&cdum); 2023-09-10T08:09:35,536 | ^~~~~ 2023-09-10T08:09:35,537 | | 2023-09-10T08:09:35,537 | double ** 2023-09-10T08:09:35,538 fletcherJC.c:11:53: note: expected ‘double *’ but argument is of type ‘double **’ 2023-09-10T08:09:35,539 11 | void SHFT2(double* a, double* b, double* c, double* d){ 2023-09-10T08:09:35,539 | ~~~~~~~~^ 2023-09-10T08:09:35,540 fletcherJC.c: In function ‘linminJC’: 2023-09-10T08:09:35,540 fletcherJC.c:225:45: warning: unused variable ‘x_sum’ [-Wunused-variable] 2023-09-10T08:09:35,541 225 | double xx,xmin,fx,fb,fa,bx,ax,*pold,tmp_x,x_sum,f_check,*likp; 2023-09-10T08:09:35,541 | ^~~~~ 2023-09-10T08:09:35,542 fletcherJC.c:225:39: warning: unused variable ‘tmp_x’ [-Wunused-variable] 2023-09-10T08:09:35,542 225 | double xx,xmin,fx,fb,fa,bx,ax,*pold,tmp_x,x_sum,f_check,*likp; 2023-09-10T08:09:35,543 | ^~~~~ 2023-09-10T08:09:35,544 fletcherJC.c: In function ‘frprmnJC’: 2023-09-10T08:09:35,544 fletcherJC.c:268:23: warning: unused variable ‘sum’ [-Wunused-variable] 2023-09-10T08:09:35,545 268 | double *g, *h, *xi, sum, *likp; 2023-09-10T08:09:35,545 | ^~~ 2023-09-10T08:09:35,546 In file included from fletcherJC.c:2: 2023-09-10T08:09:35,546 nrutil.h: At top level: 2023-09-10T08:09:35,547 nrutil.h:38:22: warning: ‘iminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,548 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:35,548 | ^~~~~~~~ 2023-09-10T08:09:35,549 nrutil.h:38:12: warning: ‘iminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,549 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:35,550 | ^~~~~~~~ 2023-09-10T08:09:35,551 nrutil.h:34:22: warning: ‘imaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,551 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:35,552 | ^~~~~~~~ 2023-09-10T08:09:35,552 nrutil.h:34:12: warning: ‘imaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,553 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:35,553 | ^~~~~~~~ 2023-09-10T08:09:35,554 nrutil.h:30:23: warning: ‘lminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,554 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:35,555 | ^~~~~~~~ 2023-09-10T08:09:35,555 nrutil.h:30:13: warning: ‘lminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,556 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:35,556 | ^~~~~~~~ 2023-09-10T08:09:35,557 nrutil.h:26:23: warning: ‘lmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,557 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:35,558 | ^~~~~~~~ 2023-09-10T08:09:35,558 nrutil.h:26:13: warning: ‘lmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,559 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:35,559 | ^~~~~~~~ 2023-09-10T08:09:35,560 nrutil.h:22:24: warning: ‘minarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,560 22 | static double minarg1, minarg2; 2023-09-10T08:09:35,561 | ^~~~~~~ 2023-09-10T08:09:35,561 nrutil.h:22:15: warning: ‘minarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,562 22 | static double minarg1, minarg2; 2023-09-10T08:09:35,562 | ^~~~~~~ 2023-09-10T08:09:35,563 nrutil.h:14:25: warning: ‘dminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,564 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:35,564 | ^~~~~~~~ 2023-09-10T08:09:35,565 nrutil.h:14:15: warning: ‘dminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,565 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:35,566 | ^~~~~~~~ 2023-09-10T08:09:35,566 nrutil.h:10:25: warning: ‘dmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,567 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:35,567 | ^~~~~~~~ 2023-09-10T08:09:35,568 nrutil.h:10:15: warning: ‘dmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,568 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:35,569 | ^~~~~~~~ 2023-09-10T08:09:35,569 nrutil.h:7:15: warning: ‘dsqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,570 7 | static double dsqrarg; 2023-09-10T08:09:35,570 | ^~~~~~~ 2023-09-10T08:09:35,571 nrutil.h:4:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:35,572 4 | static double sqrarg; 2023-09-10T08:09:35,572 | ^~~~~~ 2023-09-10T08:09:35,857 fletcherJC.c: In function ‘brentJC’: 2023-09-10T08:09:35,858 fletcherJC.c:181:32: warning: ‘e’ may be used uninitialized [-Wmaybe-uninitialized] 2023-09-10T08:09:35,859 181 | if (fabs(p) >= fabs(0.5*q*etemp) || p <= q*(a-x) || p >= q*(b-x)) { 2023-09-10T08:09:35,860 | ~~~~~^~~~~~ 2023-09-10T08:09:35,860 fletcherJC.c:159:10: note: ‘e’ was declared here 2023-09-10T08:09:35,861 159 | double e=0.0; 2023-09-10T08:09:35,862 | ^ 2023-09-10T08:09:36,353 golden.c:4: warning: "SIGMA" redefined 2023-09-10T08:09:36,354 4 | #define SIGMA 1e-5 2023-09-10T08:09:36,354 | 2023-09-10T08:09:36,355 In file included from golden.c:1: 2023-09-10T08:09:36,356 asrml.h:26: note: this is the location of the previous definition 2023-09-10T08:09:36,356 26 | #define SIGMA 1.0e-3 2023-09-10T08:09:36,357 | 2023-09-10T08:09:36,586 lik.c: In function ‘calc_lik_bfgs’: 2023-09-10T08:09:36,587 lik.c:13:51: warning: unused variable ‘prob_right’ [-Wunused-variable] 2023-09-10T08:09:36,588 13 | double mul, expmul, sum = 0., prob_left = 0., prob_right = 0., bl, smallest, scaled_lk, logroot, prob_sons[MAXPOLY], sum_mu; 2023-09-10T08:09:36,589 | ^~~~~~~~~~ 2023-09-10T08:09:36,589 lik.c:13:35: warning: unused variable ‘prob_left’ [-Wunused-variable] 2023-09-10T08:09:36,590 13 | double mul, expmul, sum = 0., prob_left = 0., prob_right = 0., bl, smallest, scaled_lk, logroot, prob_sons[MAXPOLY], sum_mu; 2023-09-10T08:09:36,590 | ^~~~~~~~~ 2023-09-10T08:09:37,125 make_tree.c: In function ‘parse_double’: 2023-09-10T08:09:37,126 make_tree.c:137:9: warning: ‘return’ with no value, in function returning non-void [-Wreturn-type] 2023-09-10T08:09:37,126 137 | return; 2023-09-10T08:09:37,127 | ^~~~~~ 2023-09-10T08:09:37,127 make_tree.c:131:5: note: declared here 2023-09-10T08:09:37,128 131 | int parse_double(char *in_str, int begin, int end, double *location) { 2023-09-10T08:09:37,129 | ^~~~~~~~~~~~ 2023-09-10T08:09:37,136 make_tree.c: In function ‘parse_nh_string’: 2023-09-10T08:09:37,137 make_tree.c:577:12: warning: too many arguments for format [-Wformat-extra-args] 2023-09-10T08:09:37,137 577 | printf("\n*** BASIC STATISTICS ***\n\n", in_str); 2023-09-10T08:09:37,138 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2023-09-10T08:09:37,138 make_tree.c:480:54: warning: unused variable ‘collapsed_internal’ [-Wunused-variable] 2023-09-10T08:09:37,139 480 | int collapsed_one = 0, uncollapsed_terminal = 0, collapsed_internal = 0; 2023-09-10T08:09:37,139 | ^~~~~~~~~~~~~~~~~~ 2023-09-10T08:09:37,140 make_tree.c:480:28: warning: unused variable ‘uncollapsed_terminal’ [-Wunused-variable] 2023-09-10T08:09:37,141 480 | int collapsed_one = 0, uncollapsed_terminal = 0, collapsed_internal = 0; 2023-09-10T08:09:37,142 | ^~~~~~~~~~~~~~~~~~~~ 2023-09-10T08:09:37,142 make_tree.c:480:9: warning: unused variable ‘collapsed_one’ [-Wunused-variable] 2023-09-10T08:09:37,143 480 | int collapsed_one = 0, uncollapsed_terminal = 0, collapsed_internal = 0; 2023-09-10T08:09:37,143 | ^~~~~~~~~~~~~ 2023-09-10T08:09:37,144 make_tree.c:479:10: warning: unused variable ‘str’ [-Wunused-variable] 2023-09-10T08:09:37,145 479 | char str[MAXLNAME]; 2023-09-10T08:09:37,145 | ^~~ 2023-09-10T08:09:37,146 make_tree.c: In function ‘complete_parse_nh’: 2023-09-10T08:09:37,146 make_tree.c:598:9: warning: unused variable ‘i’ [-Wunused-variable] 2023-09-10T08:09:37,147 598 | int i; 2023-09-10T08:09:37,148 | ^ 2023-09-10T08:09:38,011 marginal_approxi.c: In function ‘calc_correct’: 2023-09-10T08:09:38,012 marginal_approxi.c:20:12: warning: variable ‘local_numpos’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:38,012 20 | double local_numpos, tmp_correct = 10.0, local_cor; 2023-09-10T08:09:38,013 | ^~~~~~~~~~~~ 2023-09-10T08:09:38,014 marginal_approxi.c:19:15: warning: unused variable ‘k’ [-Wunused-variable] 2023-09-10T08:09:38,014 19 | int i, j, k, tmpnum, node_start; 2023-09-10T08:09:38,015 | ^ 2023-09-10T08:09:38,016 marginal_approxi.c: In function ‘order_marginal’: 2023-09-10T08:09:38,017 marginal_approxi.c:73:9: warning: variable ‘pupko’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:38,017 73 | int pupko; 2023-09-10T08:09:38,018 | ^~~~~ 2023-09-10T08:09:38,019 marginal_approxi.c:70:22: warning: unused variable ‘jj’ [-Wunused-variable] 2023-09-10T08:09:38,019 70 | int i, j, k, ii, jj, tmpnum, zerostate[nbanno], zero_count = 0, node_start; 2023-09-10T08:09:38,020 | ^~ 2023-09-10T08:09:38,021 marginal_approxi.c:70:18: warning: unused variable ‘ii’ [-Wunused-variable] 2023-09-10T08:09:38,021 70 | int i, j, k, ii, jj, tmpnum, zerostate[nbanno], zero_count = 0, node_start; 2023-09-10T08:09:38,022 | ^~ 2023-09-10T08:09:38,022 marginal_approxi.c: In function ‘make_samples’: 2023-09-10T08:09:38,023 marginal_approxi.c:156:9: warning: unused variable ‘true_count’ [-Wunused-variable] 2023-09-10T08:09:38,023 156 | int true_count = 0; 2023-09-10T08:09:38,024 | ^~~~~~~~~~ 2023-09-10T08:09:38,080 marginal_approxi.c: In function ‘calc_correct’: 2023-09-10T08:09:38,081 marginal_approxi.c:53:12: warning: ‘tmpnum’ may be used uninitialized [-Wmaybe-uninitialized] 2023-09-10T08:09:38,081 53 | if (i < tmpnum) { 2023-09-10T08:09:38,082 | ^ 2023-09-10T08:09:38,082 marginal_approxi.c:19:18: note: ‘tmpnum’ was declared here 2023-09-10T08:09:38,083 19 | int i, j, k, tmpnum, node_start; 2023-09-10T08:09:38,084 | ^~~~~~ 2023-09-10T08:09:38,403 marginal_lik.c: In function ‘down_like_marginal’: 2023-09-10T08:09:38,404 marginal_lik.c:12:23: warning: unused variable ‘sumlog’ [-Wunused-variable] 2023-09-10T08:09:38,405 12 | double curr_scaler, sumlog; 2023-09-10T08:09:38,406 | ^~~~~~ 2023-09-10T08:09:38,406 marginal_lik.c:11:17: warning: unused variable ‘tmp_factor’ [-Wunused-variable] 2023-09-10T08:09:38,407 11 | int factor=0, tmp_factor; 2023-09-10T08:09:38,407 | ^~~~~~~~~~ 2023-09-10T08:09:38,408 marginal_lik.c:11:7: warning: unused variable ‘factor’ [-Wunused-variable] 2023-09-10T08:09:38,408 11 | int factor=0, tmp_factor; 2023-09-10T08:09:38,409 | ^~~~~~ 2023-09-10T08:09:38,410 marginal_lik.c:9:123: warning: unused variable ‘bl’ [-Wunused-variable] 2023-09-10T08:09:38,410 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,411 | ^~ 2023-09-10T08:09:38,411 marginal_lik.c:9:108: warning: unused variable ‘root_my_BL’ [-Wunused-variable] 2023-09-10T08:09:38,412 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,412 | ^~~~~~~~~~ 2023-09-10T08:09:38,413 marginal_lik.c:9:99: warning: unused variable ‘logroot’ [-Wunused-variable] 2023-09-10T08:09:38,414 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,414 | ^~~~~~~ 2023-09-10T08:09:38,415 marginal_lik.c:9:85: warning: unused variable ‘scaled_lk’ [-Wunused-variable] 2023-09-10T08:09:38,415 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,416 | ^~~~~~~~~ 2023-09-10T08:09:38,416 marginal_lik.c:9:31: warning: unused variable ‘prob_up’ [-Wunused-variable] 2023-09-10T08:09:38,417 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,417 | ^~~~~~~ 2023-09-10T08:09:38,418 marginal_lik.c:9:15: warning: variable ‘expmul’ set but not used [-Wunused-but-set-variable] 2023-09-10T08:09:38,418 9 | double mul, expmul, sum=0., prob_up=0., prob_down=0., prob_down_son=0., smallest, scaled_lk=0., logroot, root_my_BL=0., bl, tmp_br, sum_mu; 2023-09-10T08:09:38,419 | ^~~~~~ 2023-09-10T08:09:38,554 marginal_lik.c:44:15: warning: ‘my_id’ may be used uninitialized [-Wmaybe-uninitialized] 2023-09-10T08:09:38,555 44 | if(i!=my_id){ 2023-09-10T08:09:38,555 | ^ 2023-09-10T08:09:38,556 marginal_lik.c:13:46: note: ‘my_id’ was declared here 2023-09-10T08:09:38,556 13 | int curr_scaler_pow, piecewise_scaler_pow, my_id, node_start; 2023-09-10T08:09:38,557 | ^~~~~ 2023-09-10T08:09:38,821 In file included from nrutil.c:2: 2023-09-10T08:09:38,822 nrutil.h:38:22: warning: ‘iminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,822 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:38,823 | ^~~~~~~~ 2023-09-10T08:09:38,824 nrutil.h:38:12: warning: ‘iminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,824 38 | static int iminarg1, iminarg2; 2023-09-10T08:09:38,825 | ^~~~~~~~ 2023-09-10T08:09:38,825 nrutil.h:34:22: warning: ‘imaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,826 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:38,826 | ^~~~~~~~ 2023-09-10T08:09:38,827 nrutil.h:34:12: warning: ‘imaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,828 34 | static int imaxarg1, imaxarg2; 2023-09-10T08:09:38,828 | ^~~~~~~~ 2023-09-10T08:09:38,829 nrutil.h:30:23: warning: ‘lminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,829 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:38,830 | ^~~~~~~~ 2023-09-10T08:09:38,830 nrutil.h:30:13: warning: ‘lminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,831 30 | static long lminarg1, lminarg2; 2023-09-10T08:09:38,832 | ^~~~~~~~ 2023-09-10T08:09:38,832 nrutil.h:26:23: warning: ‘lmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,833 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:38,833 | ^~~~~~~~ 2023-09-10T08:09:38,834 nrutil.h:26:13: warning: ‘lmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,835 26 | static long lmaxarg1, lmaxarg2; 2023-09-10T08:09:38,835 | ^~~~~~~~ 2023-09-10T08:09:38,836 nrutil.h:22:24: warning: ‘minarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,836 22 | static double minarg1, minarg2; 2023-09-10T08:09:38,837 | ^~~~~~~ 2023-09-10T08:09:38,838 nrutil.h:22:15: warning: ‘minarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,838 22 | static double minarg1, minarg2; 2023-09-10T08:09:38,839 | ^~~~~~~ 2023-09-10T08:09:38,839 nrutil.h:18:24: warning: ‘maxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,840 18 | static double maxarg1, maxarg2; 2023-09-10T08:09:38,840 | ^~~~~~~ 2023-09-10T08:09:38,841 nrutil.h:18:15: warning: ‘maxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,841 18 | static double maxarg1, maxarg2; 2023-09-10T08:09:38,842 | ^~~~~~~ 2023-09-10T08:09:38,842 nrutil.h:14:25: warning: ‘dminarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,843 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:38,843 | ^~~~~~~~ 2023-09-10T08:09:38,844 nrutil.h:14:15: warning: ‘dminarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,844 14 | static double dminarg1, dminarg2; 2023-09-10T08:09:38,845 | ^~~~~~~~ 2023-09-10T08:09:38,845 nrutil.h:10:25: warning: ‘dmaxarg2’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,846 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:38,846 | ^~~~~~~~ 2023-09-10T08:09:38,847 nrutil.h:10:15: warning: ‘dmaxarg1’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,847 10 | static double dmaxarg1, dmaxarg2; 2023-09-10T08:09:38,848 | ^~~~~~~~ 2023-09-10T08:09:38,848 nrutil.h:7:15: warning: ‘dsqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,849 7 | static double dsqrarg; 2023-09-10T08:09:38,849 | ^~~~~~~ 2023-09-10T08:09:38,850 nrutil.h:4:15: warning: ‘sqrarg’ defined but not used [-Wunused-variable] 2023-09-10T08:09:38,850 4 | static double sqrarg; 2023-09-10T08:09:38,851 | ^~~~~~ 2023-09-10T08:09:39,057 output_states.c: In function ‘output_state_anc_PP’: 2023-09-10T08:09:39,058 output_states.c:11:12: warning: unused variable ‘sum’ [-Wunused-variable] 2023-09-10T08:09:39,058 11 | double sum = 0.0; 2023-09-10T08:09:39,059 | ^~~ 2023-09-10T08:09:39,060 output_states.c:10:15: warning: unused variable ‘count’ [-Wunused-variable] 2023-09-10T08:09:39,061 10 | int i, j, count = 0, node_start, num = 0; 2023-09-10T08:09:39,061 | ^~~~~ 2023-09-10T08:09:40,119 runpastml.c: In function ‘runpastml’: 2023-09-10T08:09:40,120 runpastml.c:120:17: warning: passing argument 1 of ‘sprintf’ from incompatible pointer type [-Wincompatible-pointer-types] 2023-09-10T08:09:40,121 120 | sprintf(stderr, "Model must be either JC or F81, not %s", model); 2023-09-10T08:09:40,121 | ^~~~~~ 2023-09-10T08:09:40,122 | | 2023-09-10T08:09:40,122 | FILE * 2023-09-10T08:09:40,123 In file included from asrml.h:2, 2023-09-10T08:09:40,124 from runpastml.c:1: 2023-09-10T08:09:40,124 /usr/include/stdio.h:358:38: note: expected ‘char * restrict’ but argument is of type ‘FILE *’ 2023-09-10T08:09:40,125 358 | extern int sprintf (char *__restrict __s, 2023-09-10T08:09:40,125 | ~~~~~~~~~~~~~~~~~^~~ 2023-09-10T08:09:40,807 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2023-09-10T08:09:40,807 !! 2023-09-10T08:09:40,808 ******************************************************************************** 2023-09-10T08:09:40,809 Please avoid running ``setup.py`` directly. 2023-09-10T08:09:40,809 Instead, use pypa/build, pypa/installer or other 2023-09-10T08:09:40,810 standards-based tools. 2023-09-10T08:09:40,811 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2023-09-10T08:09:40,812 ******************************************************************************** 2023-09-10T08:09:40,813 !! 2023-09-10T08:09:40,813 self.initialize_options() 2023-09-10T08:09:41,312 Building wheel for pastml (setup.py): finished with status 'done' 2023-09-10T08:09:41,315 Created wheel for pastml: filename=pastml-0.3.1-cp311-cp311-linux_armv7l.whl size=82787 sha256=fd30743f49b78869a9cc96a6db9af8cef07f231485a2f86a9b408656ff52aca3 2023-09-10T08:09:41,317 Stored in directory: /tmp/pip-ephem-wheel-cache-aylj85eh/wheels/e5/e4/6a/d309c93ce196b89d2325bea62b94637d0a5e7a457b906ac9a6 2023-09-10T08:09:41,326 Successfully built pastml 2023-09-10T08:09:41,331 Removed build tracker: '/tmp/pip-build-tracker-k7q_a9zd'