NetBSD Problem Report #34225

From shaun@inerd.com  Fri Aug 18 03:47:34 2006
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Message-Id: <1155876426.9054@deimos.picobyte.net>
Date: Fri, 18 Aug 2006 05:47:06 +0100
From: Shaun Amott <shaun@inerd.com>
Reply-To: Shaun Amott <shaun@inerd.com>
To: gnats-bugs@NetBSD.org
Subject: New Package: graphics/raster3d: Set of tools for generating raster images of proteins and molecules
X-Send-Pr-Version: 3.95

>Number:         34225
>Category:       pkg
>Synopsis:       New Package: graphics/raster3d: Set of tools for generating raster images of proteins and molecules
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    pkg-manager
>State:          open
>Class:          change-request
>Submitter-Id:   net
>Arrival-Date:   Fri Aug 18 03:50:00 +0000 2006
>Last-Modified:  Tue Jun 01 08:20:01 +0000 2010
>Originator:     Shaun Amott
>Release:        NetBSD 3.0.1
>Organization:
>Environment:
System: NetBSD 3.0.1
Architecture: i386
Machine: i386
>Description:

This is a new package of Raster3D.

Raster3D is a set of tools for generating high quality raster images of
proteins or other molecules.

The core program renders spheres, triangles, cylinders, and quadric
surfaces with specular highlighting, Phong shading, and shadowing. It
uses an efficient software Z-buffer algorithm which is independent of
any graphics hardware.

Ancillary programs process atomic coordinates from PDB files into
rendering descriptions for pictures composed of ribbons, space-filling
atoms, bonds, ball+stick, etc.

Raster3D can also be used to render pictures composed in other programs
such as Molscript in glorious 3D with highlights, shadowing, etc. Output
is to pixel image files with 24 bits of color information per pixel.

>How-To-Repeat:

>Fix:

-----Begin raster3d.tar.gz.uu-----
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%T`"@```*
`
end
-----End raster3d.tar.gz.uu-----

>Release-Note:

>Audit-Trail:
From: OBATA Akio <obache@NetBSD.org>
To: gnats-bugs@NetBSD.org
Cc: 
Subject: Re: pkg/34225: New Package: graphics/raster3d: Set of tools for
 generating raster images of proteins and molecules
Date: Fri, 01 Feb 2008 22:16:23 +0900

 I have tree questions about your package.

 1) Why using special FFLAGS?
    at least on NetBSD 4.0 (f2c), -Wno-globals is not supported.
 2) Why need special replacement in.h for FreeBSD?
    It seems for EOL FreeBSD 4.x.

 -- 
 "Of course I love NetBSD":-)
 OBATA Akio / obache@NetBSD.org

From: Shaun Amott <shaun@inerd.com>
To: gnats-bugs@NetBSD.org
Cc: pkg-manager@netbsd.org, gnats-admin@netbsd.org, pkgsrc-bugs@netbsd.org
Subject: Re: pkg/34225: New Package: graphics/raster3d: Set of tools for
	generating raster images of proteins and molecules
Date: Fri, 1 Feb 2008 14:46:04 +0000

 On Fri, Feb 01, 2008 at 01:20:04PM +0000, OBATA Akio wrote:
 > 
 >  I have tree questions about your package.
 >  
 >  1) Why using special FFLAGS?
 >     at least on NetBSD 4.0 (f2c), -Wno-globals is not supported.

 The library path may be required on FreeBSD -- I can't remember; and I
 guess there were a lot of warnings which that flag suppressed. I'm not
 sure 4.0 even existed back when I submitted this PR. :-)

 >  2) Why need special replacement in.h for FreeBSD?
 >     It seems for EOL FreeBSD 4.x.

 Yes, this was for FreeBSD 4.x, which wasn't EOL at the time the PR was
 submitted.

 Shaun

 -- 
 Shaun Amott // PGP: 0x6B387A9A
 "A foolish consistency is the hobgoblin
 of little minds." - Ralph Waldo Emerson

Responsible-Changed-From-To: pkg-manager->obache
Responsible-Changed-By: obache@narn.netbsd.org
Responsible-Changed-When: Sat, 02 Feb 2008 05:52:48 +0000
Responsible-Changed-Why:
I'll try to import.


From: OBATA Akio <obache@NetBSD.org>
To: gnats-bugs@NetBSD.org
Cc: Shaun Amott <shaun@inerd.com>
Subject: Re: pkg/34225: New Package: graphics/raster3d: Set of tools
 for	generating raster images of proteins and molecules
Date: Sat, 02 Feb 2008 21:05:38 +0900

 Thanks for your reply.

 --On 2008/02/01 14:50 +0000 Shaun Amott <shaun@inerd.com> wrote:

 >  On Fri, Feb 01, 2008 at 01:20:04PM +0000, OBATA Akio wrote:
 >  >
 >  >  I have tree questions about your package.
 >  >
 >  >  1) Why using special FFLAGS?
 >  >     at least on NetBSD 4.0 (f2c), -Wno-globals is not supported.
 >
 >  The library path may be required on FreeBSD -- I can't remember; and I
 >  guess there were a lot of warnings which that flag suppressed. I'm not
 >  sure 4.0 even existed back when I submitted this PR. :-)

 Warnings should not be suppressed.  It has the potential to hide bugs.
 I found one problem that cause build failure with f2c.
 Subroutine zeroi is used with REAL, but define as INTEGER.

 --- ribbon.f.orig       2003-10-20 22:50:11.000000000 +0000
 +++ ribbon.f
 @@ -211,7 +211,7 @@ CEAM             nat = -1
         end

         subroutine zeroi( a, nwords )
 -       integer*4 a(nwords)
 +       real*4 a(nwords)
         do i = 1,nwords
             a(i) = 0
         end do


 >  >  2) Why need special replacement in.h for FreeBSD?
 >  >     It seems for EOL FreeBSD 4.x.
 >
 >  Yes, this was for FreeBSD 4.x, which wasn't EOL at the time the PR was
 >  submitted.

 That's right!
 But do you know why this replacement is required for FreeBSD 4.x?
 (or just taken from FreeBSD ports?)
 Some platforms supported by pkgsrc may need same replacement and
 we cannot maintain the file if we don't know why it is required.

 I'd forgotten about one more question:-) I have tree questions!

 R3D_LIB is user-configurable variable
 or always must be ${PREFIX}/share/raser3d/materials?

 -- 
 "Of course I love NetBSD":-)
 OBATA Akio / obache@NetBSD.org

Responsible-Changed-From-To: obache->pkg-manager
Responsible-Changed-By: obache@NetBSD.org
Responsible-Changed-When: Sun, 07 Sep 2008 12:30:51 +0000
Responsible-Changed-Why:
I don't handle this PR anymore.
I can't get response from submitter and newer version than in this PR is not
able to build with F2C.


From: "OBATA Akio" <obache@netbsd.org>
To: gnats-bugs@netbsd.org
Cc: 
Subject: Re: pkg/34225: New Package: graphics/raster3d: Set of tools for
 generating raster images of proteins and molecules
Date: Tue, 01 Jun 2010 17:17:24 +0900

 I've put it in pkgsrc-wip.

>Unformatted:

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