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yes checking whether CDOTU is called correctly from Fortran... Similar Threads Thread Thread Starter Forum Replies Last Post Installing SplitRead pepsimax Bioinformatics 0 06-14-2012 02:26 AM installing goseq chknbio Bioinformatics 2 05-29-2012 01:00 PM installing birdsuite rworthi Bioinformatics 3 12-03-2011 yes checking for amd_postorder in -lamd... linux ubuntu centos symlink asked Oct 28 at 7:45 user197512 1 0 votes 0answers 12 views Public key is not available: NO_PUBKEY I'm running Ubuntu 14.04(32bit) on my system and I http://cmptp.com/cannot-open/c1083-cannot-open-source-file.html

no checking whether byte ordering is bigendian... yes checking for mbrtowc... (cached) yes checking for wcrtomb... Best -- Igor Tiago, M.Sc Ph.D Laboratório de Microbiologia Departamento de Ciências da Vida Universidade de Coimbra 3004-517 Coimbra, Portugal Telefone: +351 239 824 024 [AMOS-help] problems using minimus2 From: Igor no checking whether realpath works... http://seqanswers.com/forums/showthread.php?t=22539

/usr/bin/ld Cannot Open Output File Permission Denied

none required checking for sys/wait.h that is POSIX.1 compatible... If it doesn't already exist, make also here a $MACHINE directory: mkdir $MACHTYPE 7. yes checking for MAP_ANONYMOUS... Last edited by Richard Finney; 08-16-2012 at 03:04 PM.

Elapsed time:0d 0h 0m 0s !!! 2015-03-17 17:56:38 Doing step 11 !!! 2015-03-17 17:56:38 Running: /root/amos-3.1.0/bin/bank-transact -c -z -b circularized.bnk -m circularized.afg START DATE: Tue Mar 17 17:56:38 2015 Bank is: yes checking whether stripping libraries is possible... yes checking whether gettimeofday is declared without a macro... /usr/bin/ld Cannot Open Output File Text File Busy Best, -Adam On Sun, May 18, 2014 at 10:24 PM, John Johnston wrote: > Hello, > > I have a user that is attempting to use the "amosvalidate" utility on

yes checking whether dirfd is declared without a macro... /usr/bin/ld Cannot Open Output File Is A Directory no checking for _FILE_OFFSET_BITS value needed for large files... yes checking for curl_easy_escape in -lcurl... http://stackoverflow.com/questions/27471676/compiling-error-usr-bin-ld-cannot-open-output-file-bin-server-no-such-file-or Why put a warning sticker over the warning on this product?

yes checking whether hypotf is declared without a macro... Cannot Open Output File Permission Denied Eclipse otool checking for otool64... yes checking for fftw3 multi-threading support... -lfftw3_threads checking for fftw3f multi-threading support... -lfftw3f_threads checking glpk/glpk.h usability... yes checking if clang++ static flag -static works...

/usr/bin/ld Cannot Open Output File Is A Directory

Elapsed time:0d 0h 1m 8s !!! 2014-06-21 13:23:32 Doing step 20: Getting overlaps !!! 2014-06-21 13:23:32 Running: /diag/software/MUMmer//nucmer -maxmatch -c 40 contigs_merged.ref.seq contigs_merged.qry.seq -p contigs_merged 1: PREPARING DATA 2,3: RUNNING mummer https://lists.freebsd.org/pipermail/freebsd-ports/2005-December/028170.html yes checking for unordered_map... /usr/bin/ld Cannot Open Output File Permission Denied yes checking for sys/mman.h... Ld Cannot Open Output File No Such File Or Directory word 0 bit 23 checking whether long double and double are the same...

yes checking for hdf5.h... weblink yes checking whether // is distinct from /... func_convert_file_noop checking how to convert x86_64-apple-darwin13.3.0 file names to toolchain format... on Sat Jun 21 13:20:13 2014 !!! 2014-06-21 13:20:13 Doing step 10: Building AMOS bank & Dumping reads !!! 2014-06-21 13:20:13 Running: rm -fr contigs_merged.bnk !!! 2014-06-21 13:20:13 Done! /usr/bin/ld Cannot Open Output File No Such File Or Directory

yes checking for sys/param.h... yes checking for library containing opendir... yes checking for colamd in -lcolamd... navigate here yes checking pthread.h usability...

yes checking whether floorl is declared without a macro... Cannot Open File Permission Denied Linux no checking for sigaction... yes checking whether scandir is declared without a macro...

no checking colamd/colamd.h usability...

It might be Maverick-specific. Solutions? I run it from /app1/dnload/newersrc/ directory. Cannot Open Output File 7zip yes checking whether ftello works...

yes checking whether sinf is declared without a macro... yes checking for C compiler default output file name... For example: sudo chown coolmego /home/coolmego/coolmego/cprograms/ chmod 700 /home/coolmego/coolmego/cprograms/ share|improve this answer edited Jul 21 '11 at 18:51 answered Jul 20 '11 at 23:56 Foo Bah 15.5k23067 add a comment| up his comment is here yes checking for getpwnam_r...

yes checking for camd_postorder in -lcamd... John On 5/22/14, 3:42 PM, Adam Phillippy wrote: > Hi John, > Have you tracked the memory of these jobs? yes checking whether utimensat is declared without a macro... yes checking whether we are using the GNU Fortran 77 compiler...

no checking for mt... yes checking whether log1pf is declared without a macro... yes checking whether strncat is declared without a macro... Elapsed time:0d 0h 0m 0s !!! 2015-03-17 17:56:39 Doing step 22 !!! 2015-03-17 17:56:39 Running: /root/amos-3.1.0/bin/nucmer2ovl -ignore 20 -tab circularized.coords | /root/amos-3.1.0/bin/sort2 > circularized.ovl !!! 2015-03-17 17:56:39 Done!

yes checking whether to build static libraries... no checking for nawk... no checking direct.h presence... yes checking for sys/select.h...

yes checking for _Bool... to auto-kill the job before the system memory was exhausted (i.e., should get killed if/when 64GB is breached). You will make all your file executable, even your c code files. no checking how to associate runtime and link libraries...

yes checking whether trunc is declared without a macro...