Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U [V] W  X  Y  Z 

Package 657/671HostnameOS / ArchBUILDCHECKBUILD BIN
VegaMC 2.4.0
Sandro Morganella
Snapshot Date: 2013-04-30 17:01:37 -0700 (Tue, 30 Apr 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/VegaMC
Last Changed Rev: 75263 / Revision: 76155
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: VegaMC
Version: 2.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch VegaMC_2.4.0.tar.gz
StartedAt: 2013-05-01 11:39:31 -0700 (Wed, 01 May 2013)
EndedAt: 2013-05-01 11:42:28 -0700 (Wed, 01 May 2013)
EllapsedTime: 176.9 seconds
RetCode: 0
Status:  OK 
CheckDir: VegaMC.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/VegaMC.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'VegaMC/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'VegaMC' version '2.4.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'VegaMC' can be installed ... [20s/23s] OK
* checking installed package size ... NOTE
  installed size is  5.5Mb
  sub-directories of 1Mb or more:
    example   4.9Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [12s/13s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/VegaMC.Rcheck/00check.log'
for details.

VegaMC.Rcheck/00install.out:

* installing *source* package 'VegaMC' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -g -O2 -Wall -pedantic -Wconversion -c run_vegaMC.c -o run_vegaMC.o
run_vegaMC.c:172:18: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    fwrite(line, len, 1, file);
    ˜˜˜˜˜˜       ^˜˜
run_vegaMC.c:171:11: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    len = strlen(line);
        ˜ ^˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:227:65: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    float *null_dist_loss = malloc(sizeof(float) * (num_samples + 1));
                                                 ˜  ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
run_vegaMC.c:228:65: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    float *null_dist_gain = malloc(sizeof(float) * (num_samples + 1));
                                                 ˜  ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
run_vegaMC.c:229:64: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    float *null_dist_loh = malloc(sizeof(float) * (num_samples + 1));
                                                ˜  ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
run_vegaMC.c:287:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    num_loss_sample = malloc(sizeof(int) * num_samples);
                                         ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:288:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    num_gain_sample = malloc(sizeof(int) * num_samples);
                                         ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:289:43: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    num_loh_sample = malloc(sizeof(int) * num_samples);
                                        ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:291:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    mean_loss = malloc(sizeof(float) * num_seg_regions);
                                     ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:292:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    mean_gain = malloc(sizeof(float) * num_seg_regions);
                                     ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:293:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    mean_loh = malloc(sizeof(float) * num_seg_regions);
                                    ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:380:50: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        float *l2_mean = malloc(sizeof(float) * (np));
                                              ˜  ^˜
run_vegaMC.c:381:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        int *start = malloc(sizeof(int) * (np));
                                        ˜  ^˜
run_vegaMC.c:382:42: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        int *end = malloc(sizeof(int) * (np));
                                      ˜  ^˜
run_vegaMC.c:383:48: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        int *start_pos = malloc(sizeof(int) * (np));
                                            ˜  ^˜
run_vegaMC.c:384:43: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        int *size = malloc(sizeof(int) * (np));
                                       ˜  ^˜
run_vegaMC.c:385:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        float *std = malloc(sizeof(float) * (num_samples));
                                          ˜  ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:387:49: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        float *weight = malloc(sizeof(float) * (num_samples));;
                                             ˜  ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:392:55: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        float **tmp_matrix = malloc(sizeof(float *) * num_samples);
                                                    ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:393:47: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        float *tmp_v = malloc(sizeof(float) * np);
                                            ˜ ^˜
run_vegaMC.c:398:62: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            tmp_matrix[j] = (float *) malloc(sizeof(float) * np);
                                                           ˜ ^˜
run_vegaMC.c:422:59: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        tmp->start = (data_ptr_int) malloc(sizeof(int) * (n_reg));
                                                       ˜  ^˜˜˜˜
run_vegaMC.c:423:57: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        tmp->end = (data_ptr_int) malloc(sizeof(int) * (n_reg));
                                                     ˜  ^˜˜˜˜
run_vegaMC.c:424:58: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        tmp->size = (data_ptr_int) malloc(sizeof(int) * (n_reg));
                                                      ˜  ^˜˜˜˜
run_vegaMC.c:425:59: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        tmp->l2_mean = (data_ptr) malloc(sizeof(float) * (n_reg));
                                                       ˜  ^˜˜˜˜
run_vegaMC.c:442:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_chromosomes = malloc(sizeof(int) * num_seg_regions);
                                         ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:443:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_start = malloc(sizeof(int) * num_seg_regions);
                                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:444:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_end = malloc(sizeof(int) * num_seg_regions);
                                 ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:445:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_size = malloc(sizeof(int) * num_seg_regions);
                                  ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:446:42: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_l2_mean = malloc(sizeof(float) * num_seg_regions);
                                       ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:447:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_loss_pval = malloc(sizeof(float) * num_seg_regions);
                                         ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:448:42: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_loss_perc = malloc(sizeof(int) * num_seg_regions);
                                       ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:449:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_gain_pval = malloc(sizeof(float) * num_seg_regions);
                                         ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:450:42: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_gain_perc = malloc(sizeof(int) * num_seg_regions);
                                       ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:451:43: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_loh_pval = malloc(sizeof(float) * num_seg_regions);
                                        ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:452:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    seg_loh_perc = malloc(sizeof(int) * num_seg_regions);
                                      ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:495:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    data_tmp = malloc(sizeof(float) * (num_samples));
                                    ˜  ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:524:35: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
                data_tmp[i - 3] = atof(elem);
                                ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:533:63: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        temp_probe->data = (data_ptr) malloc(sizeof(float) * (num_samples));
                                                           ˜  ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:553:54: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    lrr_matrix = (float **) malloc(sizeof(float *) * num_probes);
                                                   ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:556:58: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        baf_matrix = (float **) malloc(sizeof(float *) * num_probes);
                                                       ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:558:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    position_matrix = malloc(sizeof(int) * num_probes);
                                         ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:559:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    chromosome_matrix = malloc(sizeof(int) * num_probes);
                                           ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:560:43: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    chr_brks_start = malloc(sizeof(int) * num_chromosomes);
                                        ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:561:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    chr_brks_end = malloc(sizeof(int) * num_chromosomes);
                                      ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:570:62: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            lrr_matrix[i] = (float *) malloc(sizeof(float) * num_samples);
                                                           ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:571:62: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            baf_matrix[i] = (float *) malloc(sizeof(float) * num_samples);
                                                           ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:593:62: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            lrr_matrix[i] = (float *) malloc(sizeof(float) * num_samples);
                                                           ˜ ^˜˜˜˜˜˜˜˜˜˜
run_vegaMC.c:627:20: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            beta = atof(elem);
                 ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:639:30: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            loss_threshold = atof(elem);
                           ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:643:30: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            gain_threshold = atof(elem);
                           ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:651:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            loh_threshold = atof(elem);
                          ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:655:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            loh_frequency = atof(elem);
                          ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:663:30: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            pval_threshold = atof(elem);
                           ˜ ^˜˜˜˜˜˜˜˜˜
run_vegaMC.c:618:18: warning: unused variable 'brkt' [-Wunused-variable]
    char *elem, *brkt;
                 ^
run_vegaMC.c:690:12: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    return sqrt(sum / (n_elem - 1));
    ˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
56 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -g -O2 -Wall -pedantic -Wconversion -c sort_data.c -o sort_data.o
sort_data.c:142:49: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                                      (num_rows +
                                       ˜˜˜˜˜˜˜˜˜^
sort_data.c:146:73: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        temp_probe->data = (data_ptr) malloc(sizeof (float) * (num_cols - 3));
                                                            ˜  ˜˜˜˜˜˜˜˜˜^˜˜
sort_data.c:152:65: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                temp_probe->snp = malloc(sizeof (char) * (nchar + 1));
                                                       ˜  ˜˜˜˜˜˜^˜˜
sort_data.c:177:47: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
                temp_probe->data[index - 3] = atof(elem);
                                            ˜ ^˜˜˜˜˜˜˜˜˜
sort_data.c:187:19: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    qsort(probes, num_rows, sizeof (struct probe *), cmp_probes);
    ˜˜˜˜˜         ^˜˜˜˜˜˜˜
sort_data.c:151:25: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
                nchar = strlen(elem);
                      ˜ ^˜˜˜˜˜˜˜˜˜˜˜
6 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -g -O2 -Wall -pedantic -Wconversion -c vegaMC.c -o vegaMC.o
vegaMC.c:297:69: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    a->elements = (node_ptr) malloc(sizeof (node) * ((a->max_elems) + 1));
                                                  ˜  ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
vegaMC.c:333:48: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    b.sum = (sum_ptr) malloc(sizeof (float) * (num_of_samples));
                                            ˜  ^˜˜˜˜˜˜˜˜˜˜˜˜˜
vegaMC.c:457:32: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    lambda = (heap_max(&b)->p) - EPSILON;
           ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜
vegaMC.c:458:27: warning: implicit conversion turns floating-point number into integer: 'float' to 'int' [-Wconversion]
    lambda_gradient = abs(lambda);
                      ˜˜˜ ^˜˜˜˜˜
vegaMC.c:486:60: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
                tmp_lambda = update_priority(brks, brk_del.prev, weight);
                             ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜       ˜˜˜˜˜˜˜˜^˜˜˜
vegaMC.c:501:64: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
                    tmp_lambda = update_priority(brks, brk_del.next, weight);
                                 ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜       ˜˜˜˜˜˜˜˜^˜˜˜
vegaMC.c:519:40: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            lambda = (heap_max(&b)->p) - EPSILON;
                   ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜
vegaMC.c:539:21: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
        i = brk_del.next;
          ˜ ˜˜˜˜˜˜˜˜^˜˜˜
vegaMC.c:558:31: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
        prev_id = (brks + i)->prev;
                ˜ ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜
vegaMC.c:602:53: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        tmp_sum[i] = floor(data[i][0] * ROUND_CNST) / ROUND_CNST;
                   ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
vegaMC.c:605:52: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
    *(brks) = breakpoint_create(0, -1, tmp_sum, 1, -1, 1);
              ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜                    ^˜
vegaMC.c:614:27: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
        breakpoint_create(num_of_probes, -1, tmp_sum, -1, -1, -1);
        ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜˜
vegaMC.c:614:59: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
        breakpoint_create(num_of_probes, -1, tmp_sum, -1, -1, -1);
        ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜                                 ^˜
vegaMC.c:614:63: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
        breakpoint_create(num_of_probes, -1, tmp_sum, -1, -1, -1);
        ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜                                     ^˜
vegaMC.c:637:17: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            c = pow(a, 2);
              ˜ ^˜˜˜˜˜˜˜˜
vegaMC.c:640:26: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        tmp_lambda = 0.5 * tmp_lambda;
                   ˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
vegaMC.c:642:31: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
            breakpoint_create(i, -tmp_lambda, tmp_sum, 1, i - 1, i + 1);
            ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^
vegaMC.c:642:61: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
            breakpoint_create(i, -tmp_lambda, tmp_sum, 1, i - 1, i + 1);
            ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜                             ˜˜^˜˜
vegaMC.c:642:68: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
            breakpoint_create(i, -tmp_lambda, tmp_sum, 1, i - 1, i + 1);
            ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜                                    ˜˜^˜˜
vegaMC.c:643:36: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
        heap_insert(b, node_create(i, -tmp_lambda));
                       ˜˜˜˜˜˜˜˜˜˜˜ ^
20 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/VegaMC.Rcheck/VegaMC/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (VegaMC)

VegaMC.Rcheck/VegaMC-Ex.timings:

nameusersystemelapsed
VegaMC-package0.2620.0550.369
sortData0.4460.0400.502
vegaMC-methods2.0730.0792.217