Dear r-sig-mac list,
I just installed R 15.1 on MAC 0S 10.7.4.
I installed Tcl/Tk8.5 in /usr/local/lib
Excerpts from my environment
MY_TCLTK=Yes
TCL_LIBRARY=/usr/local/lib/
When I run a Bioconductor Program called OneChannelGUI
which calls another Bioconductor Program called affylmGUI
I get the following error message
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> oneChannelGUI()
Error in function () : Aborted from affylmGUI.
In addition: Warning message:
In tclRequire(tclPkg) : Tcl package 'BWidget' not found
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () : Aborted from affylmGUI.
Error in function () :
Tcl/Tk extensions (Tktable and BWidget) not found!
<Tcl> ok
>
@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
Followed the following pop-up:
@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@
Cannot find Tcl/Tk package "BWidget". affylmGUI cannot continue.
affylmGUI requires the Tcl/Tk extensions, BWidget and Tktable.
You must have Tcl/Tk installed on your computer, The
Tcl/Tk installation which comes with R includes BWidget and Tktable. If you
do have
Tcl/Tk installed elsewhere, including the extensions, make sure that R can find
the path to the
Tcl library, e.g. C:\Tcl\lib (on Windows) or /usr/lib (on Linux/Unix)
or /sw/lib on Mac OSX.
Set the environment variable TCL_LIBRARY to the appropriate path. for eg.
C:\Tcl\lib\tcl8.4
and set the MY_TCLTK environment variable to a non-empty string, e.g. "Yes".
If using Windows, read the R for windows FAQ at
http://cran.r-project.org/bin/windows/base/rw-FAQ.html
If your Tcl/Tk extensions still can't be found, try
addTclPath("<path to Tcl library>").
This could be put in $HOME/.Rprofile
If you need further instructions, please contact your system administrator
and consider emailing r-h...@stat.math.ethz.ch, or browse through the R-help
Bioconductor archives for a similar question.
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I cannot find BWidget anywhere in /usr/local/lib or its subdirectories,
although Tktable is there:
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ccrfml1:lib friedman$ ls -R
Tktable2.9 libtclstub8.5.a libtkstub8.5.a tcl8.5 tk8.5
libtcl8.5.dylib libtk8.5.dylib tcl8 tclConfig.sh tkConfig.sh
./Tktable2.9:
README.txt libTktable2.9.dylib pkgIndex.tcl
html license.txt tkTable.tcl
./Tktable2.9/html:
tkTable.html
./tcl8:
8.3 8.4 8.5
./tcl8/8.3:
./tcl8/8.4:
http-2.7.1.tm platform platform-1.0.3.tm
./tcl8/8.4/platform:
shell-1.1.3.tm
./tcl8/8.5:
msgcat-1.4.2.tm tcltest-2.3.0.tm
./tcl8.5:
auto.tcl http1.0 opt0.4 tclAppInit.c
clock.tcl init.tcl package.tcl tclIndex
encoding ldAix parray.tcl tm.tcl
history.tcl msgs safe.tcl word.tcl
./tcl8.5/encoding:
ascii.enc cp855.enc ebcdic.enc iso8859-16.enc macCroatian.enc
big5.enc cp857.enc euc-cn.enc iso8859-2.enc macCyrillic.enc
cp1250.enc cp860.enc euc-jp.enc iso8859-3.enc macDingbats.enc
cp1251.enc cp861.enc euc-kr.enc iso8859-4.enc macGreek.enc
cp1252.enc cp862.enc gb12345.enc iso8859-5.enc macIceland.enc
cp1253.enc cp863.enc gb1988.enc iso8859-6.enc macJapan.enc
cp1254.enc cp864.enc gb2312-raw.enc iso8859-7.enc macRoman.enc
cp1255.enc cp865.enc gb2312.enc iso8859-8.enc macRomania.enc
cp1256.enc cp866.enc iso2022-jp.enc iso8859-9.enc macThai.enc
cp1257.enc cp869.enc iso2022-kr.enc jis0201.enc macTurkish.enc
cp1258.enc cp874.enc iso2022.enc jis0208.enc macUkraine.enc
cp437.enc cp932.enc iso8859-1.enc jis0212.enc shiftjis.enc
cp737.enc cp936.enc iso8859-10.enc koi8-r.enc symbol.enc
cp775.enc cp949.enc iso8859-13.enc koi8-u.enc tis-620.enc
cp850.enc cp950.enc iso8859-14.enc ksc5601.enc
cp852.enc dingbats.enc iso8859-15.enc macCentEuro.enc
./tcl8.5/http1.0:
http.tcl pkgIndex.tcl
./tcl8.5/msgs:
af.msg en_nz.msg eu.msg it.msg ro.msg
af_za.msg en_ph.msg eu_es.msg it_ch.msg ru.msg
ar.msg en_sg.msg fa.msg ja.msg ru_ua.msg
ar_in.msg en_za.msg fa_in.msg kl.msg sh.msg
ar_jo.msg en_zw.msg fa_ir.msg kl_gl.msg sk.msg
ar_lb.msg eo.msg fi.msg ko.msg sl.msg
ar_sy.msg es.msg fo.msg ko_kr.msg sq.msg
be.msg es_ar.msg fo_fo.msg kok.msg sr.msg
bg.msg es_bo.msg fr.msg kok_in.msg sv.msg
bn.msg es_cl.msg fr_be.msg kw.msg sw.msg
bn_in.msg es_co.msg fr_ca.msg kw_gb.msg ta.msg
ca.msg es_cr.msg fr_ch.msg lt.msg ta_in.msg
cs.msg es_do.msg ga.msg lv.msg te.msg
da.msg es_ec.msg ga_ie.msg mk.msg te_in.msg
de.msg es_gt.msg gl.msg mr.msg th.msg
de_at.msg es_hn.msg gl_es.msg mr_in.msg tr.msg
de_be.msg es_mx.msg gv.msg ms.msg uk.msg
el.msg es_ni.msg gv_gb.msg ms_my.msg vi.msg
en_au.msg es_pa.msg he.msg mt.msg zh.msg
en_be.msg es_pe.msg hi.msg nb.msg zh_cn.msg
en_bw.msg es_pr.msg hi_in.msg nl.msg zh_hk.msg
en_ca.msg es_py.msg hr.msg nl_be.msg zh_sg.msg
en_gb.msg es_sv.msg hu.msg nn.msg zh_tw.msg
en_hk.msg es_uy.msg id.msg pl.msg
en_ie.msg es_ve.msg id_id.msg pt.msg
en_in.msg et.msg is.msg pt_br.msg
./tcl8.5/opt0.4:
optparse.tcl pkgIndex.tcl
./tk8.5:
bgerror.tcl dialog.tcl msgbox.tcl prolog.ps text.tcl
button.tcl entry.tcl msgs safetk.tcl tk.tcl
choosedir.tcl focus.tcl obsolete.tcl scale.tcl tkAppInit.c
clrpick.tcl images optMenu.tcl scrlbar.tcl tkfbox.tcl
comdlg.tcl listbox.tcl palette.tcl spinbox.tcl ttk
console.tcl menu.tcl panedwindow.tcl tclIndex unsupported.tcl
demos mkpsenc.tcl pkgIndex.tcl tearoff.tcl xmfbox.tcl
./tk8.5/demos:
README dialog2.tcl items.tcl puzzle.tcl timer
anilabel.tcl en.msg ixset radio.tcl toolbar.tcl
aniwave.tcl entry1.tcl knightstour.tcl rmt tree.tcl
arrow.tcl entry2.tcl label.tcl rolodex ttkbut.tcl
bind.tcl entry3.tcl labelframe.tcl ruler.tcl ttkmenu.tcl
bitmap.tcl filebox.tcl license.terms sayings.tcl ttknote.tcl
browse floor.tcl mclist.tcl search.tcl ttkpane.tcl
button.tcl form.tcl menu.tcl spin.tcl ttkprogress.tcl
check.tcl goldberg.tcl menubu.tcl square twind.tcl
clrpick.tcl hello msgbox.tcl states.tcl unicodeout.tcl
colors.tcl hscale.tcl nl.msg style.tcl vscale.tcl
combo.tcl icon.tcl paned1.tcl tclIndex widget
cscroll.tcl image1.tcl paned2.tcl tcolor
ctext.tcl image2.tcl pendulum.tcl text.tcl
dialog1.tcl images plot.tcl textpeer.tcl
./tk8.5/demos/images:
earth.gif flagdown.xbm letters.xbm tcllogo.gif
earthris.gif flagup.xbm noletter.xbm teapot.ppm
face.xbm gray25.xbm pattern.xbm
./tk8.5/images:
README logo64.gif pwrdLogo.eps pwrdLogo175.gif tai-ku.gif
logo.eps logoLarge.gif pwrdLogo100.gif pwrdLogo200.gif
logo100.gif logoMed.gif pwrdLogo150.gif pwrdLogo75.gif
./tk8.5/msgs:
cs.msg en.msg fr.msg pl.msg
da.msg en_gb.msg hu.msg pt.msg
de.msg eo.msg it.msg ru.msg
el.msg es.msg nl.msg sv.msg
./tk8.5/ttk:
altTheme.tcl entry.tcl sizegrip.tcl
aquaTheme.tcl fonts.tcl treeview.tcl
button.tcl menubutton.tcl ttk.tcl
clamTheme.tcl notebook.tcl utils.tcl
classicTheme.tcl panedwindow.tcl winTheme.tcl
combobox.tcl progress.tcl xpTheme.tcl
cursors.tcl scale.tcl
defaults.tcl scrollbar.tcl
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I would greatly appreciate any help or suggestions to solve this problem.
Thanks and best wishes
Rich
Richard A. Friedman, PhD
Associate Research Scientist,
Biomedical Informatics Shared Resource
Herbert Irving Comprehensive Cancer Center (HICCC)
Lecturer,
Department of Biomedical Informatics (DBMI)
Educational Coordinator,
Center for Computational Biology and Bioinformatics (C2B2)/
National Center for Multiscale Analysis of Genomic Networks (MAGNet)
Room 824
Irving Cancer Research Center
Columbia University
1130 St. Nicholas Ave
New York, NY 10032
(212)851-4765 (voice)
fried...@cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/
"School is an evil plot to suppress my individuality"
Rose Friedman, age15
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