On 09/10/2014 10:11 PM, libin wrote: > Hi, > My linux system can't network with the internet, so I download the > XVector package. > I use the commond install.packages("XVector_0.4.0.tar.gz").? > You mean it's the version problem?? > which version should I use? It depends on what version of IRanges you have. biocLite() would automatically figure out these things for you so I strongly recommend that you use Bioconductor on a machine with internet access. Cheers, H. > > Best wishes. > Bin > > > ------------------ ???? ------------------ > *???:* "hpages";<hpages at="" fhcrc.org="">; > *????:* 2014?9?11?(???) ??12:29 > *???:* "libin"<skylib777 at="" gmail.com="">; > *??:* "bioconductor at r-project.org"<bioconductor at="" r-project.org="">; > *??:* Re: XVector > > Hi, > > You're not showing the command you used to install XVector. > Remember that you should *always* use biocLite() to install > a Bioconductor package, as explained here: > > http://bioconductor.org/install/ > > This avoids version mismatches, which is probably what is > happening in your case. > > Hope this helps, > > H. > > On 09/10/2014 08:28 PM, libin wrote: > > hi,Pages? > > I met a problem when install the R package "XVector " > > the error messages are as follows: > > my R version is 3.1.1, can you give me some tips? > > thank you! > > > > gcc -std=gnu99 > > > -I/ifshk4/BC_CANCER/PROJECT/HKC11045_HUMxfnX_EC/zhouyong/libin01/R/R -3.1.1/include > > -DNDEBUG -I/usr/local/include > > > -I"/ifshk4/BC_CANCER/PROJECT/HKC11045_HUMxfnX_EC/zhouyong/libin01/R/ R-3.1.1/library/IRanges/include" > > -fpic -g -O2 -c SharedVector_class.c -o SharedVector_class.o > > SharedVector_class.c: In function 'SharedVector_memcmp': > > SharedVector_class.c:237: warning: implicit declaration of function > > 'vector_memcmp' > > gcc -std=gnu99 > > > -I/ifshk4/BC_CANCER/PROJECT/HKC11045_HUMxfnX_EC/zhouyong/libin01/R/R -3.1.1/include > > -DNDEBUG -I/usr/local/include > > > -I"/ifshk4/BC_CANCER/PROJECT/HKC11045_HUMxfnX_EC/zhouyong/libin01/R/ R-3.1.1/library/IRanges/include" > > -fpic -g -O2 -c XRawList_comparison.c -o XRawList_comparison.o > > XRawList_comparison.c:284: warning: 'struct htab' declared inside > > parameter list > > XRawList_comparison.c:284: warning: its scope is only this definition or > > declaration, which is probably not what you want > > XRawList_comparison.c: In function 'get_bucket_idx_for_Chars_holder': > > XRawList_comparison.c:292: error: dereferencing pointer to incomplete > type > > XRawList_comparison.c:293: error: dereferencing pointer to incomplete > type > > XRawList_comparison.c:298: error: dereferencing pointer to incomplete > type > > XRawList_comparison.c: In function 'XRawList_match_hash': > > XRawList_comparison.c:309: error: storage size of 'htab' isn't known > > XRawList_comparison.c:317: warning: implicit declaration of function > > 'new_htab' > > XRawList_comparison.c:322: warning: implicit declaration of function > > 'get_hbucket_val' > > XRawList_comparison.c:323: warning: implicit declaration of function > > 'set_hbucket_val' > > XRawList_comparison.c: In function 'XRawList_selfmatch_hash': > > XRawList_comparison.c:347: error: storage size of 'htab' isn't known > > make: *** [XRawList_comparison.o] Error 1 > > ERROR: compilation failed for package 'XVector' > > * removing > > > '/ifshk4/BC_CANCER/PROJECT/HKC11045_HUMxfnX_EC/zhouyong/libin01/R/R- 3.1.1/library/XVector' > > Warning message: > > In install.packages("XVector_0.4.0.tar.gz") : > > installation of package 'XVector_0.4.0.tar.gz' had non-zero exit > status? > > > > -- > Hervé Pagès > > Program in Computational Biology > Division of Public Health Sciences > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N, M1-B514 > P.O. Box 19024 > Seattle, WA 98109-1024 > > E-mail: hpages at fhcrc.org > Phone: (206) 667-5791 > Fax: (206) 667-1319 -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319