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agiliopadua / homebrew-extras

Some Homebrew formulae.
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Can't install xcrysden #2

Closed boyoungzheng closed 4 years ago

boyoungzheng commented 6 years ago

Homebrew does not have formula "x11". By the way, I have Xquatz installed. Are there any options to use "my" available xquartz? Thank you.

==> Installing xcrysden from agiliopadua/extras Error: No available formula with the name "x11" (dependency of agiliopadua/extras/xcrysden) ==> Searching for a previously deleted formula (in the last month)... Error: No previously deleted formula found. ==> Searching for similarly named formulae... This similarly named formula was found: x11vnc To install it, run: brew install x11vnc ==> Searching taps... ==> Searching taps on GitHub... Error: No formulae found in taps.

Homebrew 1.7.0 Homebrew/homebrew-core (git revision b47f6e; last commit 2018-07-19) MacOS 10.13.5 XQuartz 2.7.11 (xorg-server 1.18.4)

agiliopadua commented 6 years ago

Hello,

This formula is broken because of some issue in the tcl/tk needed by xcrysden, which is an outdated version. I’ll try to fix the x11 issue but that’s not the main problem…

Regards, Agilio

On 19 Jul 2018, at 21:16, boyoungzheng notifications@github.com wrote:

Homebrew does not have formula "x11". By the way, I have Xquatz installed. Are there any options to use "my" available xquartz? Thank you.

==> Installing xcrysden from agiliopadua/extras Error: No available formula with the name "x11" (dependency of agiliopadua/extras/xcrysden) ==> Searching for a previously deleted formula (in the last month)... Error: No previously deleted formula found. ==> Searching for similarly named formulae... This similarly named formula was found: x11vnc To install it, run: brew install x11vnc ==> Searching taps... ==> Searching taps on GitHub... Error: No formulae found in taps.

Homebrew 1.7.0 Homebrew/homebrew-core (git revision b47f6e; last commit 2018-07-19) MacOS 10.13.5 XQuartz 2.7.11 (xorg-server 1.18.4)

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specter119 commented 6 years ago

@boyoungzheng, I agree with @agiliopadua x11 is not the main problem, I have tried tcl/tk 8.5, 8.6, 8.7 and mac os default, none of them works. you can view all my attempts at https://gist.github.com/specter119/4f630e538d39edcf67ec742f78c23aab .

boyoungzheng commented 6 years ago

The Macport can successfully build Xcrysden. I have absolutely no idea how it works. Maybe you code genius can look into it and do the same trick in homebrew? I prefer installing through homebrew :-)

specter119 commented 6 years ago

@boyoungzheng I know MacPort and Fink can build it. But their codes haven't change for quite a long time.

Thanks to @agiliopadua, I believe that he has made all the most necessary modifications (you can compare the modification in MacPort and Fink I provide). Also his codes could also help you build xcrysden in the near past.

But the New issue is:

5156 Segmentation fault: 11  ${XCRYSDEN_XCRYS_DIR}/xcrys ${XCRYSDEN_TOPDIR}/Tcl/xcInit.tcl $USE -- $XCRYSDEN_TOPDIR $XCRYSDEN_SCRATCH "$@" > /dev/null

when xcrysden launches (you can successfully build xcrysden with tcl/tk 8.5/8.6/8.7/system with the code in my gist).

This issue is more related to homebrew tcl/tk or even MacOS itself I guess, and few useful message in xcrysden mail list mentioned this.

I also eager to use xcrysden on Mac natively, but I finally turn to linux instead. I think you should consider MacPort, Fink, Linux or even WSL on windows as an alternative way.

I know nothing about tcl/tk, so that I'm not able to fix this at all. If you find any one can fix this, I am happy to merge it to brewsci/homebrew-science.

Tomoki9684 commented 6 years ago

Thanks to @agiliopadua patch. I can successfully build XCrysden from source package. Although there is the error( http://www.democritos.it/pipermail/xcrysden/2015-October/001750.html ), we can solve its error( http://www.democritos.it/pipermail/xcrysden/2015-October/001754.html) from xcrysden_root/F/gengeom.f. Before compiling, I performed export PATH="/usr/local/bin:$PATH",brew install tcl-tk --with-threads --with-x11 and brew link tcl-tk --overwrite --force. I hope to become clue of problem solving.

specter119 commented 6 years ago

@Tomoki9684 tcl-tk no longer have --with-threads and --with-x11 options

Tomoki9684 commented 6 years ago

@specter119 I'm sorry that I forget to tell about changing the formula. we can download this address (https://www.dropbox.com/s/tq2dsvtclsmt0ec/tcl-tk.rb?dl=0) with --with-threads and --with-x11 options. Please, overwrite homebrew/core formula. However, I cannot open the bxsf format (ex. Fermi Surface) because of Segmentation fault: 11.

specter119 commented 6 years ago

Dear all, according to @Tomoki9684's opinion, I have add --with-x11 to tcl-tk, and add xcrysden to brewsci/homebrew-science. you can see:

add with-x11 option for tcl-tk add xcrysden

you can wait for the 2 prs merging, or build them by modify your local homebrew.

update:

because homebrew-science has been archive and is not maintained.

you can install xcrysden by my fork of homebrew-science

by the way, bxsf related functions work well.