[buster-discuss] New BUSTER/TNT installation - seems to be *almost* working...

[Steve Lane]

Greetings.  I have installed SHARP several times with success, but this
is my first go at BUSTER.  Everything seems fine until I try to use
(any) one of the sample data sets, at which point I get:


ERROR in /usr/local/buster/buffet/cgi-bin/inputform.cgi

    The following return values are set:

    * Child error = 0
    * OS error =
    * Eval error = 0 

Error message  :   Error parsing the mtzdump output of /usr/local/buster/users/drsteve/None.buster/datafiles/Barnase.mtz Cell/symmetry/resolution information is missing 


(Above this, on the same webpage, listed under "2. Diffraction Data",
I see several function definitions, included below.)

Note that it doesn't seem to matter which dataset I use, the problem
is always with Barnase.mtz.  It also doesn't *seem* to be a permissions
problem - I was able to create ~/busterfiles without any problems, and
I manually opened up the permissions on all the files and directories
in ~/busterfiles (to 777) without any improvement.

Any help will be most appreciated.

--
Steve Lane
System, Network and Security Administrator
Doudna Lab
Biomolecular Structure and Mechanism Group
UC Berkeley

========================================

2.    Diffraction data
   function changeResol( type ) { var el; var defVal; var low_bound; var high_bound; if( type == 0 ) { el = document.launch.res_low.value * 1.0; defVal = file.reslo.value * 1.0; low_bound = document.launch.res_hi.value * 1.0; high_bound = file.reslo.value * 1.0; } else { el = document.launch.res_hi.value * 1.0; defVal = file.reshi.value * 1.0; low_bound = file.reshi.value * 1.0; high_bound = document.launch.res_low.value * 1.0; } checkBounds( el, 0.99*low_bound, 1.01*high_bound, defVal ); if( type == 0 ) { document.launch.le1.value = el; document.launch.bs1.value = el; document.launch.dn1.value = el; } else { document.launch.le2.value = el; document.launch.bs2.value = el; document.launch.dn2.value = el; } } function checkBounds( el, low_bound, high_bound, default_val ) { var value = el.value * 1.0; var low = low_bound * 1.0; var high = high_bound * 1.0; if( value < low || value > high ) { alert( "This value " + value + " must be between " + low + " and " + high ); el.value = default_val * 1.0; } } function Label( name, type ) { this.name = name; this.type = type; } function MTZ( name, cell, symm, res, labels ) { this.name = name; this.cell = cell; this.symm = symm; this.reslo = res[0] * 1.0; this.reshi = res[1] * 1.0; this.labels = labels; } function selectMTZ( f, selection ) { // Loop over all available MTZ files for( var i = 0; i < mtzs.length; ++i ) { if( mtzs[i].name == selection ) { file = mtzs[i]; f.res_low.value = file.reslo * 1.0; f.res_hi.value = file.reshi * 1.0; changeResol( 0 ); changeResol( 1 ); f.a.value = file.cell[0] * 1.0; f.b.value = file.cell[1] * 1.0; f.c.value = file.cell[2] * 1.0; f.alpha.value = file.cell[3] * 1.0; f.beta.value = file.cell[4] * 1.0; f.gamma.value = file.cell[5] * 1.0; f.symm.value = file.symm; document.launch.FP_Label.options.length = 0; var k = 0; for( var j = 0; j < mtzs[i].labels.length; ++j ) if( mtzs[i].labels[j].type == "F" ) ++k; --k; if( k > 0 ) { document.launch.FP_Label.options[0] = new Option( "None", "None", true, true ); document.launch.FP_Label.selectedIndex = 0; k = 1; } for( var j = 0; j < mtzs[i].labels.length; ++j ) { if( mtzs[i].labels[j].type == "F" ) { var selected = false; if( k == 0 ) selected = true; f.FP_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, selected, selected ); ++k; } } document.launch.FP_Label.options[0].selected = true; document.launch.SIGFP_Label.options.length = 0; k = 0; for( var j = 0; j < mtzs[i].labels.length; ++j ) if( mtzs[i].labels[j].type == "Q" ) ++k; --k; if( k > 0 ) { document.launch.SIGFP_Label.options[0] = new Option( "None", "None", true, true ); document.launch.SIGFP_Label.selectedIndex = 0; k = 1; } for( var j = 0; j < mtzs[i].labels.length; ++j ) { if( mtzs[i].labels[j].type == "Q" ) { var selected = false; if( k == 0 ) selected = true; f.SIGFP_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, selected, selected ); ++k; } } document.launch.SIGFP_Label.options[0].selected = true; document.launch.FreeR_flag_Label.options.length = 0; k = 0; for( var j = 0; j < mtzs[i].labels.length; ++j ) if( mtzs[i].labels[j].type == "I" ) ++k; --k; if( k > 0 ) { document.launch.FreeR_flag_Label.options[0] = new Option( "None", "None", true, true ); document.launch.FreeR_flag_Label.selectedIndex = 0; k = 1; } for( var j = 0; j < mtzs[i].labels.length; ++j ) { if( mtzs[i].labels[j].type == "I" ) { var selected = false; if( k == 0 ) selected = true; f.FreeR_flag_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, selected, selected ); ++k; } } document.launch.FreeR_flag_Label.options[0].selected = true; document.launch.HLA_Label.options.length = 0; document.launch.HLB_Label.options.length = 0; document.launch.HLC_Label.options.length = 0; document.launch.HLD_Label.options.length = 0; f.HLA_Label.options[0] = new Option( "None", "None" ); f.HLB_Label.options[0] = new Option( "None", "None" ); f.HLC_Label.options[0] = new Option( "None", "None" ); f.HLD_Label.options[0] = new Option( "None", "None" ); k = 1; for( var j = 0; j < mtzs[i].labels.length; ++j ) { if( mtzs[i].labels[j].type == "A" ) { if( mtzs[i].labels[j].type == "HLA" ) f.HLA_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, true, true ); else f.HLA_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name ); if( mtzs[i].labels[j].type == "HLB" ) f.HLB_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, true, true ); else f.HLB_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name ); if( mtzs[i].labels[j].type == "HLC" ) f.HLC_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, true, true ); else f.HLC_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name ); if( mtzs[i].labels[j].type == "HLD" ) f.HLD_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name, true, true ); else f.HLD_Label.options[k] = new Option( mtzs[i].labels[j].name, mtzs[i].labels[j].name ); ++k; } } break; } } } function clearHL( f, el ) { if( el.selectedIndex == 0 ) { f.HLA_Label.selectedIndex = 0; f.HLB_Label.selectedIndex = 0; f.HLC_Label.selectedIndex = 0; f.HLD_Label.selectedIndex = 0; } } var mtzs = new Array( 4 );