seqminer
Efficiently Read Sequence Data (VCF Format, BCF Format, METAL Format and BGEN Format) into R
Description
Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R. This package can help you (1) read VCF/BCF/BGEN files by chromosomal ranges (e.g. 1:100-200); (2) read 'RareMETAL' summary statistics files; (3) read tables from a 'tabix'-indexed files; (4) annotate VCF/BCF files; (5) create customized workflow based on Makefile.
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CRAN Check Status
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | WARNING |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | WARNING |
| r-release-windows-x86_64 | OK |
Check details (7 non-OK)
for GNU extensions in Makefiles
GNU make is a SystemRequirements.
installed package size
installed size is 12.9Mb
sub-directories of 1Mb or more:
libs 11.4Mb
for GNU extensions in Makefiles
GNU make is a SystemRequirements.
installed package size
installed size is 13.4Mb
sub-directories of 1Mb or more:
libs 11.9Mb
whether package can be installed
Found the following significant warnings: SingleChromosomeVCFIndex.cpp:109:51: warning: format specifies type 'long' but the argument has type 'int64_t' (aka 'long long') [-Wformat] See ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.4/seqminer.Rcheck/00install.out’ for details. * used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used SDK: ‘MacOSX11.3.sdk’
for GNU extensions in Makefiles
GNU make is a SystemRequirements.
whether package can be installed
Found the following significant warnings: SingleChromosomeVCFIndex.cpp:109:51: warning: format specifies type 'long' but the argument has type 'int64_t' (aka 'long long') [-Wformat] See ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.5/seqminer.Rcheck/00install.out’ for details. * used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used SDK: ‘NA’
Additional Issues
Check History
WARNING 10 OK · 2 NOTE · 2 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
whether package can be installed
Found the following significant warnings: SingleChromosomeVCFIndex.cpp:109:51: warning: format specifies type 'long' but the argument has type 'int64_t' (aka 'long long') [-Wformat] See ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.5/seqminer.Rcheck/00install.out’ for details. * used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used SDK: ‘NA’
installed package size
installed size is 12.9Mb
sub-directories of 1Mb or more:
libs 11.4Mb
whether package can be installed
Found the following significant warnings: SingleChromosomeVCFIndex.cpp:109:51: warning: format specifies type 'long' but the argument has type 'int64_t' (aka 'long long') [-Wformat] See ‘/Volumes/Builds/packages/big-sur-x86_64/results/4.4/seqminer.Rcheck/00install.out’ for details. * used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’ * used SDK: ‘MacOSX11.3.sdk’
for GNU extensions in Makefiles
GNU make is a SystemRequirements.