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BioC 3.4: CHECK report for DECIPHER on morelia

This page was generated on 2017-04-15 16:23:50 -0400 (Sat, 15 Apr 2017).

Package 304/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DECIPHER 2.2.0
Erik Wright
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/DECIPHER
Last Changed Rev: 122710 / Revision: 128728
Last Changed Date: 2016-10-17 14:45:06 -0400 (Mon, 17 Oct 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: DECIPHER
Version: 2.2.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings DECIPHER_2.2.0.tar.gz
StartedAt: 2017-04-15 00:52:42 -0700 (Sat, 15 Apr 2017)
EndedAt: 2017-04-15 00:57:44 -0700 (Sat, 15 Apr 2017)
EllapsedTime: 302.7 seconds
RetCode: 0
Status:  OK 
CheckDir: DECIPHER.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings DECIPHER_2.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/DECIPHER.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DECIPHER/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DECIPHER’ version ‘2.2.0’
* 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 ‘DECIPHER’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.5Mb
  sub-directories of 1Mb or more:
    data      2.5Mb
    doc       3.8Mb
    extdata   1.4Mb
* checking package directory ... OK
* checking ‘build’ 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 loading without being on the library search path ... OK
* checking 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 ... NOTE
DesignSignatures: no visible binding for global variable ‘deltaHrules’
Undefined global functions or variables:
  deltaHrules
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
CorrectFrameshifts 20.420  1.263  21.820
AlignSeqs          19.790  0.143  21.559
StaggerAlignment   17.807  0.098  21.841
PredictDBN         10.028  0.110  10.289
BrowseSeqs          9.164  0.070   9.609
Array2Matrix        6.546  0.044   6.594
DesignArray         6.333  0.033   6.405
AlignTranslation    5.640  0.086   8.000
Synteny-class       0.773  0.013   5.673
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.4-bioc/meat/DECIPHER.Rcheck/00check.log’
for details.


DECIPHER.Rcheck/00install.out:

* installing *source* package ‘DECIPHER’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c AlignProfiles.c -o AlignProfiles.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c AssignIndels.c -o AssignIndels.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Biostrings_stubs.c -o Biostrings_stubs.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c CalculateDeltaG.c -o CalculateDeltaG.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c CalculateFISH.c -o CalculateFISH.o
CalculateFISH.c:26:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -11.5, -7.8, -7, -8.3,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                    }
CalculateFISH.c:27:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -10.4, -12.8, -16.3, -9.1,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                        }
CalculateFISH.c:28:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -8.6, -8, -9.3, -5.9,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                   }
CalculateFISH.c:29:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -7.8, -5.5, -9, -7.8
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                   }
CalculateFISH.c:32:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -36.4, -21.6, -19.7, -23.9,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:33:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -28.4, -31.9, -47.1, -23.5,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:34:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.9, -17.1, -23.2, -12.3,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:35:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -23.2, -13.5, -26.1, -21.9
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:38:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -7.9, -8.4, -7.8, -7.2,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                     }
CalculateFISH.c:39:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -8.5, -8, -10.6, -7.8,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                    }
CalculateFISH.c:40:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -8.2, -9.8, -8, -8.4,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                   }
CalculateFISH.c:41:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -7.2, -8.2, -8.5, -7.9
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                     }
CalculateFISH.c:44:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.2, -22.4, -21, -20.4,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                       }
CalculateFISH.c:45:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.7, -19.9, -27.2, -21,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                       }
CalculateFISH.c:46:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.2, -24.4, -19.9, -22.4,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:47:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -21.3, -22.2, -22.7, -22.2
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:50:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -6.6, -10.17, -7.65, -5.76,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                         }
CalculateFISH.c:51:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -10.56, -12.21, -7.95, -7.65,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                           }
CalculateFISH.c:52:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -13.37, -14.21, -12.21, -10.17,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                             }
CalculateFISH.c:53:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -8.11, -13.37, -10.56, -6.6
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                          }
CalculateFISH.c:56:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -18.38, -26.03, -19.18, -15.67,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                             }
CalculateFISH.c:57:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -28.25, -30.02, -19.18, -19.18,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                             }
CalculateFISH.c:58:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -35.68, -34.85, -30.02, -26.03,
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                             }
CalculateFISH.c:59:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.59, -35.68, -28.25, -18.38
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                             }
24 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ChainSegments.c -o ChainSegments.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ClusterML.c -o ClusterML.o
ClusterML.c:397:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ClusterNJ.c -o ClusterNJ.o
ClusterNJ.c:214:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ClusterUPGMA.c -o ClusterUPGMA.o
ClusterUPGMA.c:128:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c CommonGaps.c -o CommonGaps.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Compositions.c -o Compositions.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Compression.c -o Compression.o
Compression.c:517:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
Compression.c:1402:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
Compression.c:1698:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ConsensusSequence.c -o ConsensusSequence.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ConsolidateGaps.c -o ConsolidateGaps.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c DesignProbes.c -o DesignProbes.o
DesignProbes.c:71:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -0.816507461,-2.5401714,-1.647430026,-1.184658548
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                                                }
DesignProbes.c:72:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-1.854740485,-2.479102613,-2.826248182,-1.647430026
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                  }
DesignProbes.c:73:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-2.48761723,-4.694133177,-2.479102613,-2.5401714
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                               }
DesignProbes.c:74:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-0.495794417,-2.48761723,-1.854740485,-0.816507461
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                 }
DesignProbes.c:78:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -0.141370102,-0.439805276,-0.285236035,-0.205111781
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                                                  }
DesignProbes.c:79:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-0.321129768,-0.429231826,-0.48933661,-0.285236035
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                 }
DesignProbes.c:80:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-0.430706047,-0.812742218,-0.429231826,-0.439805276
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                  }
DesignProbes.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-0.085841845,-0.430706047,-0.321129768,-0.141370102
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                  }
DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                0,0,0,0
                ^˜˜˜˜˜˜
                {      }
DesignProbes.c:86:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.545032445,1.254355018,1.491691514,1.329138183
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:87:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.150635633,0.582415494,1.075877275,1.187937642
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:88:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.203555051,1.001540513,0.864287715,0.717125848
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:89:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                0,0,0,0
                ^˜˜˜˜˜˜
DesignProbes.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.630005348,0.18553379,0.730763505,0.709272397
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.856582783,-0.143236405,0.716721488,0.603652831
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                               }
DesignProbes.c:93:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.851622883,0.653168672,0.676545316,1.187937642
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:94:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.630005348,0.18553379,0.730763505,0.709272397
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:95:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.231861002,0.746214538,1.087821916,0.989140748
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:96:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.822113278,1.270687029,1.336192565,1.364584949
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:97:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:98:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.443665704,1.385046493,1.256013166,1.329138183
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:99:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:95:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.231861002,0.746214538,1.087821916,0.989140748
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:100:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.478009492,0.882097231,1.20450984,1.061002478
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:101:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.496720812,0.846496194,0.967868114,0.989140748
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:102:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.766581547,-0.024857805,0.50754303,0.709272397
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:103:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:104:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:100:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.478009492,0.882097231,1.20450984,1.061002478
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:105:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:106:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:107:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:108:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.76,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:109:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:105:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.75,0.65,0.69,0.78
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:85:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                0,0,0,0
                ^˜˜˜˜˜˜
DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:111:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.295827995,0.84547091,0.91019099,1.256013166
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                            }
DesignProbes.c:112:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.755889609,0.241428373,0.396379912,0.676545316
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:113:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.99945386,0.740323132,0.435659206,0.864287715
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:114:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.55,0.48,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:115:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.843147406,0.101248351,0.49063599,0.50754303
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                            }
DesignProbes.c:116:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:117:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.0651638,0.249934344,0.699352949,0.716721488
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                            }
DesignProbes.c:118:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.871921533,0.59458138,0.396379912,1.075877275
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:119:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.56,0.49,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:115:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.843147406,0.101248351,0.49063599,0.50754303
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:120:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.07531714,0.318907854,0.653287717,0.967868114
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:121:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.099899195,0.730184613,0.661798984,1.336192565
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:122:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:123:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.45897431,1.318532145,0.91019099,1.491691514
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                            }
DesignProbes.c:124:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.56,0.49,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:120:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.07531714,0.318907854,0.653287717,0.967868114
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:125:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.242135174,0.894838095,1.108555445,1.20450984
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:126:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.911428974,0.524430101,0.653287717,1.087821916
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:127:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.503209827,0.274849491,0.49063599,0.730763505
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:128:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:129:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.55,0.48,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:125:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.242135174,0.894838095,1.108555445,1.20450984
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:130:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.55,0.48,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:131:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.56,0.49,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:132:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.56,0.49,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:133:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.55,0.48,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:134:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:130:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.65,0.55,0.48,0.69
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:110:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:136:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.100661785,0.969784756,1.318532145,1.385046493
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:137:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.565895968,-0.060347902,0.59458138,0.653168672
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:138:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.782168488,0.788161238,0.740323132,1.001540513
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:139:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.46,0.55,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:140:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.468913405,-0.469855984,0.274849491,-0.024857805
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                                }
DesignProbes.c:141:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:142:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.258195131,-0.70438632,0.249934344,-0.143236405
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                               }
DesignProbes.c:143:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.502914193,-0.060347902,0.241428373,0.582415494
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                               }
DesignProbes.c:144:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.47,0.56,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:140:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.468913405,-0.469855984,0.274849491,-0.024857805
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:145:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.584083861,0.258975454,0.524430101,0.846496194
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:146:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.968040559,0.797499702,0.730184613,1.270687029
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:147:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:148:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.081040749,0.969784756,0.84547091,1.254355018
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:149:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.47,0.56,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:145:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.584083861,0.258975454,0.524430101,0.846496194
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:150:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.048553951,0.728354541,0.894838095,0.882097231
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:151:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.88611252,0.258975454,0.318907854,0.746214538
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:152:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.239520858,-0.469855984,0.101248351,0.18553379
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:153:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:154:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.46,0.55,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:150:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.048553951,0.728354541,0.894838095,0.882097231
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:155:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.46,0.55,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:156:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.47,0.56,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:157:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.47,0.56,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:158:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.46,0.55,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:159:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:155:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.68,0.46,0.55,0.65
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:135:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:161:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.566899704,1.081040749,1.45897431,1.443665704
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:162:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.976725675,0.502914193,0.871921533,0.851622883
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:163:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.482046826,0.782168488,0.99945386,1.203555051
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:164:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.76
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:165:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.798628781,0.239520858,0.503209827,0.766581547
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:166:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:167:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.141098246,0.258195131,1.0651638,0.856582783
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                            }
DesignProbes.c:168:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.976725675,0.565895968,0.755889609,1.150635633
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:169:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:165:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.798628781,0.239520858,0.503209827,0.766581547
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:170:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.125403302,0.88611252,0.911428974,1.496720812
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:171:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.68169282,0.968040559,1.099899195,1.822113278
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:172:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:173:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.566899704,1.100661785,1.295827995,1.545032445
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:174:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:170:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.125403302,0.88611252,0.911428974,1.496720812
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:175:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.35948517,1.048553951,1.242135174,1.478009492
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:176:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.125403302,0.584083861,1.07531714,1.231861002
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                             }
DesignProbes.c:177:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.798628781,0.468913405,0.843147406,0.630005348
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                                              }
DesignProbes.c:178:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:179:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:175:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,1.35948517,1.048553951,1.242135174,1.478009492
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:180:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:181:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:182:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:183:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
DesignProbes.c:184:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0        
                 ^˜˜˜˜˜˜
                 {      }
DesignProbes.c:180:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0.85,0.68,0.65,0.75
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
DesignProbes.c:160:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,0,0,0,0
                 ^˜˜˜˜˜˜
DesignProbes.c:58:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
133 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Diff.c -o Diff.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c DistanceMatrix.c -o DistanceMatrix.o
DistanceMatrix.c:238:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c EnumerateSequence.c -o EnumerateSequence.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ExpandAmbiguities.c -o ExpandAmbiguities.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c FindFrameshifts.c -o FindFrameshifts.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c GetPools.c -o GetPools.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Import.c -o Import.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c InsertGaps.c -o InsertGaps.o
InsertGaps.c:47:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c IntDist.c -o IntDist.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c MeltPolymer.c -o MeltPolymer.o
MeltPolymer.c:80:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -7.9,-8.4,-7.8,-7.2
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                  }
MeltPolymer.c:81:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-8.5,-8.0,-10.6,-7.8
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                   }
MeltPolymer.c:82:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-8.2,-9.8,-8.0,-8.4
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
MeltPolymer.c:83:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-7.2,-8.2,-8.5,-7.9
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                  }
MeltPolymer.c:89:3: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                -22.2,-22.4,-21.0,-20.4
                ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                {                      }
MeltPolymer.c:90:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-22.7,-19.9,-27.2,-21.0
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                      }
MeltPolymer.c:91:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-22.2,-24.4,-19.9,-22.4
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                      }
MeltPolymer.c:92:4: warning: suggest braces around initialization of subobject [-Wmissing-braces]
                ,-21.3,-22.2,-22.7,-22.2
                 ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
                 {                      }
8 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c MovingAverage.c -o MovingAverage.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c MultiMatch.c -o MultiMatch.o
MultiMatch.c:184:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
MultiMatch.c:215:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
MultiMatch.c:244:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
MultiMatch.c:352:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
MultiMatch.c:453:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
MultiMatch.c:570:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
6 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c NNLS.c -o NNLS.o
NNLS.c:49:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Order.c -o Order.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c PredictDBN.c -o PredictDBN.o
PredictDBN.c:116:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c PredictHEC.c -o PredictHEC.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c R_init_decipher.c -o R_init_decipher.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c RemoveGaps.c -o RemoveGaps.o
RemoveGaps.c:44:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c ReplaceChars.c -o ReplaceChars.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c TerminalMismatch.c -o TerminalMismatch.o
TerminalMismatch.c:40:6: warning: unused variable 'nthreads' [-Wunused-variable]
        int nthreads = asInteger(nThreads);
            ^
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c Translate.c -o Translate.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Biostrings/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/S4Vectors/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/XVector/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c XVector_stubs.c -o XVector_stubs.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o DECIPHER.so AlignProfiles.o AssignIndels.o Biostrings_stubs.o CalculateDeltaG.o CalculateFISH.o ChainSegments.o ClusterML.o ClusterNJ.o ClusterUPGMA.o CommonGaps.o Compositions.o Compression.o ConsensusSequence.o ConsolidateGaps.o DesignProbes.o Diff.o DistanceMatrix.o EnumerateSequence.o ExpandAmbiguities.o FindFrameshifts.o GetPools.o Import.o InsertGaps.o IntDist.o MeltPolymer.o MovingAverage.o MultiMatch.o NNLS.o Order.o PredictDBN.o PredictHEC.o R_init_decipher.o RemoveGaps.o ReplaceChars.o TerminalMismatch.o Translate.o XVector_stubs.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.4-bioc/meat/DECIPHER.Rcheck/DECIPHER/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DECIPHER)

DECIPHER.Rcheck/DECIPHER-Ex.timings:

nameusersystemelapsed
Add2DB0.2510.0090.308
AdjustAlignment0.2460.0100.257
AlignDB1.0300.0361.096
AlignProfiles1.0680.0321.187
AlignSeqs19.790 0.14321.559
AlignSynteny1.6800.0201.966
AlignTranslation5.6400.0868.000
AmplifyDNA0.0040.0010.213
Array2Matrix6.5460.0446.594
BrowseDB0.0360.0010.053
BrowseSeqs9.1640.0709.609
CalculateEfficiencyArray0.0130.0060.020
CalculateEfficiencyFISH0.0050.0000.005
CalculateEfficiencyPCR0.0060.0000.005
Codec0.5510.0060.558
ConsensusSequence0.2340.0040.373
CorrectFrameshifts20.420 1.26321.820
CreateChimeras0.9770.0041.013
DB2Seqs0.0190.0080.303
DesignArray6.3330.0336.405
DesignPrimers0.0010.0010.001
DesignProbes0.0010.0000.001
DesignSignatures0.0020.0000.002
DigestDNA0.1480.0030.151
Disambiguate0.0460.0010.047
DistanceMatrix0.0070.0010.007
FindChimeras0.0670.0020.069
FindSynteny1.7950.0081.828
FormGroups0.0860.0020.088
HEC_MI0.2300.0130.258
IdClusters3.8930.0583.968
IdConsensus0.8580.0180.923
IdLengths0.0180.0010.019
IdentifyByRank0.0430.0010.045
MIQS0.0060.0020.070
MODELS0.0010.0010.000
MaskAlignment0.7230.0080.954
MeltDNA0.0420.0020.120
NNLS0.0070.0010.008
OrientNucleotides1.1700.0091.180
PredictDBN10.028 0.11010.289
PredictHEC0.4470.0130.461
RESTRICTION_ENZYMES0.0040.0010.005
ReadDendrogram0.0290.0020.079
SearchDB0.0450.0020.063
Seqs2DB0.1150.0030.133
StaggerAlignment17.807 0.09821.841
Synteny-class0.7730.0135.673
TerminalChar0.0170.0010.018
TileSeqs4.7900.0114.801
TrimDNA0.0310.0010.032
WriteDendrogram0.0080.0000.007
deltaGrules0.0090.0060.014
deltaHrules0.0180.0050.023
deltaSrules0.0550.0020.057