Re: [Senseclusters-developers] SVDPACKC install problem
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Re: [Senseclusters-developers] SVDPACKC install problem
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From: Ted P. <dul...@gm...> - 2008-04-07 15:51:58
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Hi Teshome, It looks to me like you are having problems with compiling las2.c - you do appear to have gcc installed, but then it's not finding your include files (like stdio.h, which are usually provided with your system....So, without finding those .h files nothing else will work with the compile. The output of your gcc -v command tells me you are running Ubuntu, and one of the strange things about Ubuntu is that it does not include "developer" settings by default, that is to say Ubuntu sort of assumes you won't be compiling C programs, so they don't give you the .h files by default. You just need to install those.... Here's a nice post on this issue from : http://www.spiration.co.uk/post/1291 I've cut and pasted that note below, which I think is right on target. If you run the apt-get command below I think things will be fine. If you want to run install.sh again you should just delete that cluto directory that got unpacked in the same directory as install.sh, and then submit again....(after doing the apt-get command below). Let us know how that works out... Good luck, Ted ============================================================== Somehow I assumed that I would be able to compile a basic C program on any linux box - I mean unices are useful like that, right? So I was a bit surprised when I decided to compile a bit of C just now (in fact Christian Wolff's neat little mp3cut tool) and was faced with the following errors: chris@snackerjack-lx:/usr/src/mp3cut-0.8$ make gcc -o mp3cut mp3cut.c mp3cut.c:25:19: error: stdio.h: No such file or directory mp3cut.c:26:20: error: stdlib.h: No such file or directory mp3cut.c:27:20: error: string.h: No such file or directory mp3cut.c:28:20: error: unistd.h: No such file or directory ..etc .. etc So what kind of unix comes with make and a compiler, but none of the required dev libraries and headers required to make any normal C program work? Well a brief google yielded the following solution.. Yup, you guessed it.. you need to install a dev package: sudo apt-get install build-essential Excuse my rant, but if it's so 'essential', then why isn't it installed as part of the core system? I find that kinda weird. Anyway, problem fixed and C-sources are now compiling. christo ======================================================= % sudo ./install.sh /usr/local/bin [sudo] password for teshomek: rm: No match. ************************************************** let's install svdpackc... this involes compiling the las2 program and then doing a very simple check to make sure that worked via a diff command of output produced by your installed version with a key we provide (lao2.key) your gcc version is gcc (GCC) 4.1.3 20070929 (prerelease) (Ubuntu 4.1.2-16ubuntu2) Copyright (C) 2006 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. SVDPACKC generally requires 3.2 or 3.3, and usually has problems with 4.0 or above gcc -ansi -O -c las2.c las2.c:12:19: error: stdio.h: No such file or directory las2.c:13:20: error: stdlib.h: No such file or directory las2.c:14:20: error: string.h: No such file or directory las2.c:15:19: error: errno.h: No such file or directory las2.c:16:18: error: math.h: No such file or directory las2.c:17:19: error: fcntl.h: No such file or directory In file included from las2.c:18: las2.h:63: error: ‘NULL’ undeclared here (not in a function) las2.h:84: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘*’ token las2.c: In function ‘main’: las2.c:152: error: ‘FILE’ undeclared (first use in this function) las2.c:152: error: (Each undeclared identifier is reported only once las2.c:152: error: for each function it appears in.) las2.c:152: error: ‘fp_in1’ undeclared (first use in this function) las2.c:152: error: ‘fp_in2’ undeclared (first use in this function) las2.c:161: warning: incompatible implicit declaration of built-in function ‘printf’ las2.c:162: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:165: warning: incompatible implicit declaration of built-in function ‘printf’ las2.c:166: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:168: error: ‘fp_out1’ undeclared (first use in this function) las2.c:169: warning: incompatible implicit declaration of built-in function ‘printf’ las2.c:170: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:174: warning: incompatible implicit declaration of built-in function ‘fscanf’ las2.c:191: warning: incompatible implicit declaration of built-in function ‘printf’ las2.c:192: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:214: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:234: warning: incompatible implicit declaration of built-in function ‘malloc’ las2.c:237: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:237: error: ‘errno’ undeclared (first use in this function) las2.c:291: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:301: warning: incompatible implicit declaration of built-in function ‘fprintf’ las2.c:330: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c:365: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c:384: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c:398: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c: At top level: las2.c:403: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘*’ token las2.c: In function ‘check_parameters’: las2.c:453: warning: incompatible implicit declaration of built-in function ‘fprintf’ las2.c:453: error: ‘fp_out1’ undeclared (first use in this function) las2.c: At top level: las2.c:457: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘*’ token las2.c: In function ‘write_data’: las2.c:470: warning: incompatible implicit declaration of built-in function ‘fprintf’ las2.c:470: error: ‘fp_out1’ undeclared (first use in this function) las2.c: In function ‘landr’: las2.c:594: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c:613: warning: incompatible implicit declaration of built-in function ‘malloc’ las2.c:615: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:615: error: ‘errno’ undeclared (first use in this function) las2.c:635: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:637: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘ritvec’: las2.c:725: warning: incompatible implicit declaration of built-in function ‘malloc’ las2.c:727: warning: incompatible implicit declaration of built-in function ‘exit’ las2.c:727: error: ‘errno’ undeclared (first use in this function) las2.c:749: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘lanso’: las2.c:953: warning: incompatible implicit declaration of built-in function ‘printf’ las2.c:961: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘lanczos_step’: las2.c:1093: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c:1112: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c: In function ‘purge’: las2.c:1255: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c:1280: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c: In function ‘stpone’: las2.c:1367: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c:1368: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘startv’: las2.c:1467: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c: In function ‘random’: las2.c:1514: warning: incompatible implicit declaration of built-in function ‘atan’ las2.c:1515: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c: In function ‘pythag’: las2.c:1564: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘error_bound’: las2.c:1630: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c:1632: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c:1640: warning: incompatible implicit declaration of built-in function ‘sqrt’ las2.c: In function ‘imtqlb’: las2.c:1738: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘imtql2’: las2.c:1894: warning: incompatible implicit declaration of built-in function ‘fabs’ las2.c: In function ‘store’: las2.c:2159: warning: incompatible implicit declaration of built-in function ‘fprintf’ las2.c:2159: error: ‘stderr’ undeclared (first use in this function) las2.c:2165: warning: incompatible implicit declaration of built-in function ‘fprintf’ las2.c: In function ‘idamax’: las2.c:2381: warning: incompatible implicit declaration of built-in function ‘fabs’ make: *** [las2.o] Error 1 las2: Command not found. check your las2 output against our key ... diff: lao2: No such file or directory there *may* be some differences in the output of your lao2 file compared to the key we provide these are due to execution time differences and arithmetic differences on different architectures however, as long as your lao2 file has some output in a format similar to lao2.key then it you can assume it has compiled and is running successfully clean up a few output files... cp: cannot stat `las2': No such file or directory rm -fr las2.o timersun.o las2 lav2 matrix ...now installing las2 in /usr/local/bin *************************************************** now let's install cluto .... we are using wget, if you don't have that installed or there are some problems accessing the cluto site this could fail, in which case you would need to visit http://glaros.dtc.umn.edu/gkhome/fetch/sw/cluto/cluto-2.1.1.tar.gz and download to install (verify the url is correct) --10:39:38-- http://glaros.dtc.umn.edu/gkhome/fetch/sw/cluto/cluto-2.1.1.tar.gz => `cluto-2.1.1.tar.gz' Resolving glaros.dtc.umn.edu... 128.101.191.158 Connecting to glaros.dtc.umn.edu|128.101.191.158|:80... connected. HTTP request sent, awaiting response... 200 OK Length: 9,364,297 (8.9M) [application/x-gzip] 100%[====================================>] 9,364,297 2.88K/s ETA 00:00 12:34:26 (1.33 KB/s) - `cluto-2.1.1.tar.gz' saved [9364297/9364297] ...will now unzip cluto-2.1.1.tar.gz ...will now untar cluto-2.1.1.tar cluto-2.1.1/ cluto-2.1.1/CHANGES cluto-2.1.1/cluto.h cluto-2.1.1/COPYRIGHT cluto-2.1.1/Linux/ cluto-2.1.1/Linux/libcluto.a cluto-2.1.1/Linux/scluster cluto-2.1.1/Linux/vcluster cluto-2.1.1/manual.pdf cluto-2.1.1/manual.ps cluto-2.1.1/Matrices/ cluto-2.1.1/Matrices/genes1.mat cluto-2.1.1/Matrices/genes1.mat.rlabel cluto-2.1.1/Matrices/genes2.mat cluto-2.1.1/Matrices/genes2.mat.clabel cluto-2.1.1/Matrices/genes2.mat.rlabel cluto-2.1.1/Matrices/k1b.mat cluto-2.1.1/Matrices/k1b.mat.clabel cluto-2.1.1/Matrices/k1b.mat.rclass cluto-2.1.1/Matrices/README cluto-2.1.1/Matrices/sports.clabel cluto-2.1.1/Matrices/sports.mat cluto-2.1.1/Matrices/sports.rclass cluto-2.1.1/Matrices/t4.mat cluto-2.1.1/Matrices/t7.mat cluto-2.1.1/Matrices/tr23.graph cluto-2.1.1/Matrices/tr23.graph.rclass cluto-2.1.1/Matrices/tr23.mat cluto-2.1.1/Matrices/tr23.mat.clabel cluto-2.1.1/Matrices/tr23.mat.rclass cluto-2.1.1/paper1.pdf cluto-2.1.1/paper2.pdf cluto-2.1.1/README cluto-2.1.1/Sun/ cluto-2.1.1/Sun/libcluto.a cluto-2.1.1/Sun/scluster cluto-2.1.1/Sun/vcluster cluto-2.1.1/VERSION cluto-2.1.1/Win32/ cluto-2.1.1/Win32/libcluto.lib cluto-2.1.1/Win32/scluster.exe cluto-2.1.1/Win32/vcluster.exe it looks like you are using Linux ... ...installed scluster and vcluster in /usr/local/bin ...make sure /usr/local/bin is included in your PATH if all has gone well, you have installed svdpackc (las2) and cluto (scluter and vcluster) in /usr/local/bin let's check...you should see three files: las2 scluster vcluster ls: /usr/local/bin/las2: No such file or directory -rwxr-x--- 1 root 1178264 2008-04-07 12:34 /usr/local/bin/scluster -rwxr-x--- 1 root 1212576 2008-04-07 12:34 /usr/local/bin/vcluster .... end of External Software Installation for SenseClusters .... if you have some problem with this script, please save the output and send it to tpederse at d.umn.edu for further assistance % On Mon, Apr 7, 2008 at 8:02 AM, Teshome Kassie <tk...@ya...> wrote: > Hi Ted, > > I have attached the error with external installation. > > Teshome > > > > > ________________________________ > You rock. That's why Blockbuster's offering you one month of Blockbuster > Total Access, No Cost. -- Ted Pedersen http://www.d.umn.edu/~tpederse |
