Hi Craig, I was wondering if you had allready solved this problem as i am having the same. I have already tried chmod -R but it has not helped.
Kind regards, Bas Op maandag 25 april 2016 19:54:07 UTC+2 schreef Craig Lawless: > > Hi Joe, > > Thanks for getting back to me. I'm building on Ubuntu 14.04. I managed to > get through the set-up. I commented out "use strict" in the > ProtXMLViewer.pl. > > My next issue now is I'm unable to view/upload/change directory. > > TPP states that my current directory is /ISB/data/, but when I try > changing directory, uploading files etc I just get the error: > > > - Attempted to access non-existing directory. > - Attempted to access forbidden directory. > > > Any ideas? > > I have tried altering tpp_gui_config.pl to set defaults, of 'base_dir', > 'www_root' and "data_dir', but so far nothing has worked. > > Regards > > Craig > > On Wednesday, 20 April 2016 18:43:16 UTC+1, [email protected] > wrote: >> >> What Linux platform/version are you trying to built it for? >> >> On Wed, Apr 20, 2016 at 7:28 AM, Craig Lawless < >> [email protected]> wrote: >> >>> Please can anyone help. I've never really had any success installing TPP >>> in previous years on linux and so have avoided until now. >>> >>> I am following the instructions as per the INSTALL_LINUX file provided >>> in the unpacked TPP_4.8.0-src.tgz. >>> >>> I'm using default settings (i.e. no changes to the Makefile.incl file). >>> >>> I run make all. >>> >>> The first warning I get is: >>> svn: E155036: The working copy at >>> '/home/mjfidcl2/TPP2/TPP-4.8.0/trans_proteomic_pipeline/extern/htmldoc' >>> is too old (format 9) to work with client version '1.8.8 (r1568071)' >>> (expects format 31). You need to upgrade the working copy first. >>> >>> I get 100s of warning messages referring to items such as: >>> >>> htmldoc.cxx:385:41: warning: conversion to ‘float’ from ‘double’ may >>> alter its value [-Wconversion] >>> PDFEffectDuration = atof(argv[i]); >>> ^ >>> htmllib.cxx:555:18: warning: conversion to ‘hdChar {aka unsigned char}’ >>> from ‘int’ may alter its value [-Wconversion] >>> *ptr++ = ch; >>> ^ >>> image.h: In destructor ‘virtual hdBMPImage::~hdBMPImage()’: >>> image.h:136:7: warning: inlining failed in call to >>> ‘hdBMPImage::~hdBMPImage()’: call is unlikely and code size would grow >>> [-Winline] >>> class hdBMPImage : public hdImage >>> ^ >>> Which ends in: >>> Formatting htmldoc.pdf... >>> Aborted (core dumped) >>> make[2]: *** [htmldoc.pdf] Error 134 >>> >>> I then get similar warning all the way through. >>> ../src/H5Eprivate.h:54:40: warning: anonymous variadic macros were >>> introduced in C99 [-Wvariadic-macros] >>> #define HDONE_ERROR(maj, min, ret_val, ...) { \ >>> ^ >>> ../src/H5Eprivate.h:66:40: warning: anonymous variadic macros were >>> introduced in C99 [-Wvariadic-macros] >>> #define HGOTO_ERROR(maj, min, ret_val, ...) { \ >>> ^ >>> tchecksum.c: In function ‘test_chksum_large’: >>> tchecksum.c:192:26: warning: conversion to ‘uint8_t’ from ‘size_t’ may >>> alter its value [-Wconversion] >>> large_buf[u] = u * 3; >>> >>> ../../src/H5public.h:140:23: warning: ISO C90 does not support 'long >>> long' [-Wlong-long] >>> typedef unsigned long long hsize_t; >>> ^ >>> ../../src/H5public.h:141:21: warning: ISO C90 does not support 'long >>> long' [-Wlong-long] >>> typedef signed long long hssize_t; >>> ^ >>> Then right at the end I get: >>> >>> >>> /usr/bin/perl -pe >>> "s/\/tpp\/cgi-bin\//\/tpp\/cgi-bin\//g;s/\/cygdrive\/c\/Inetpub\/tpp-bin\//\/usr\/local\/tpp\/cgi\-bin\//g;s/\x24\{base_dir\}users\//\/usr\/local\/tpp\/cgi-bin\/users\//g;s/\/tools\/bin\/TPP\/tpp\//\/usr\/local\/tpp\//g;s/cygpath >>> >>> \-wp >>> //g;s/\"\/cygdrive\/c\/Inetpub\/wwwroot\/\"/\\x24ENV\{\'WEBSERVER_ROOT\'\}\.'\/'/g;s/\/tpp\-bin/\/tpp\/cgi\-bin/g;s/'\/usr\/bin\//'/g;s/'\/bin\//'/g >>> >>> ;s/\/usr\/bin\/perl/\/usr\/bin\/perl/g " < ../../CGI/ProtXMLViewer.pl > >>> ../../build/Ubuntu-x86_64/ProtXMLViewer.pl >>> /usr/bin/perl -c -I ../../build/Ubuntu-x86_64 >>> ../../build/Ubuntu-x86_64/ProtXMLViewer.pl >>> Bareword "endform" not allowed while "strict subs" in use at >>> ../../build/Ubuntu-x86_64/ProtXMLViewer.pl line 271. >>> Bareword "endform" not allowed while "strict subs" in use at >>> ../../build/Ubuntu-x86_64/ProtXMLViewer.pl line 271. >>> ../../build/Ubuntu-x86_64/ProtXMLViewer.pl had compilation errors. >>> make[1]: *** [../../build/Ubuntu-x86_64/ProtXMLViewer.pl] Error 255 >>> make[1]: *** Deleting file `../../build/Ubuntu-x86_64/ProtXMLViewer.pl' >>> make[1]: Leaving directory >>> `/home/mjfidcl2/TPP2/TPP-4.8.0/trans_proteomic_pipeline/src/perl_paths' >>> make: *** [perl_paths] Error 2 >>> >>> Any help? >>> >>> Regards >>> >>> Craig >>> >>> >>> -- >>> You received this message because you are subscribed to the Google >>> Groups "spctools-discuss" group. >>> To unsubscribe from this group and stop receiving emails from it, send >>> an email to [email protected]. >>> To post to this group, send email to [email protected]. >>> Visit this group at https://groups.google.com/group/spctools-discuss. >>> For more options, visit https://groups.google.com/d/optout. >>> >> >> >> >> -- >> Joe Slagel >> Institute for Systems Biology >> [email protected] >> >> -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
