r - Rsamtools error when loading packages -
when want load rsamtools package in r see error bellow :
error in get(method, envir = home) : lazy-load database'/library/frameworks/r.framework/versions/3.2/resources/library/rsamtools/ r/rsamtools.rdb' corrupt in addition: warning messages: 1: in .registers3method(fin[i, 1], fin[i, 2], fin[i, 3], fin[i, 4], : restarting interrupted promise evaluation 2: in get(method, envir = home) : restarting interrupted promise evaluation 3: in get(method, envir = home) : internal error -3 in r_decompress1 error: package or namespace load failed ‘rsamtools’
and output of sessioninfo :
r version 3.2.0 (2015-04-16) platform: x86_64-apple-darwin13.4.0 (64-bit) running under: os x 10.9 (mavericks) locale: [1] en_us.utf-8/en_us.utf-8/en_us.utf-8/c/en_us.utf-8/en_us.utf-8 attached base packages: [1] stats4 parallel stats graphics grdevices utils datasets methods [9] base other attached packages: [1] uniprot.ws_2.8.0 rcurl_1.95-4.6 bitops_1.0-6 rsqlite_1.0.0 [5] dbi_0.3.1 biocinstaller_1.18.2 biostrings_2.36.1 xvector_0.8.0 [9] annotationdbi_1.30.1 biobase_2.28.0 genomicranges_1.20.4 genomeinfodb_1.4.0 [13] iranges_2.2.3 s4vectors_0.6.0 biocgenerics_0.14.0 loaded via namespace (and not attached): [1] zlibbioc_1.14.0 tools_3.2.0 biomart_2.24.0 xml_3.98-1.2
not can't use rsamtools when want use old packages use them before error occures bellow example using "txdb.hsapiens.ucsc.hg19.knowngene" package :
loading required package: genomicfeatures error in get(method, envir = home) : lazy-load database '/library/frameworks/r.framework/versions/3.2/resources/library/rsamtools/r/rsamto ols.rdb' corrupt in addition: warning messages: 1: in .registers3method(fin[i, 1], fin[i, 2], fin[i, 3], fin[i, 4], : restarting interrupted promise evaluation 2: in get(method, envir = home) : restarting interrupted promise evaluation 3: in get(method, envir = home) : internal error -3 in r_decompress1 error: package ‘genomicfeatures’ not loaded
what should do?
surprisingly!restarting session solved problem :|
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