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@uVVSQyZZ$Yh`oPZPD@D @uYPPPQ,Z^$_h/oPZ  P$BDŽ(BDŽ$$WZY[hwP:Z$\XZhioWZY[hxW ZoEEꡈEE$Z~1ҋB9DžDž PP$hnoWkY^X @􉝸RWDŽ((YZYhoPY=߃51ɉ<-AB$!Ae1[^_]Ë4  SU\B  RŽX0T+.P& Pcv'UWVS4] h}h>$>}WWjsVV?Eth[QQh~hp=YZSP=[Zh1~P=<$q=uHPPBPR>? jq?@VVhjǀ8hX=Y[h1fhG=Dž|DžlDž$<$=Dž($e<PDžlDžlh$9>e[^_]PPh<hp<$>$y> Dž|DžlWDž <$<Dž($;PDžlDžlh Pz=$2> ÍDž(PG;PDžlDžlh랐U]>Su}:\0\0)Eu]u}]1֍v'G;}r]u}]Ð&U]w>ZSu}\0\0)EHt41&G9}u@]u}]ÐUSRptpЋCuX[]ÐUS=R=Y[]/mnt/EXTRA_STORAGE/MUSTANG_v.2/CmdLine OptionArguments Description --------------:: invalid option: ' with any valid option! -p-i-f%dError Opening File: Error opening infile: GAD SAVE ME!!! -o-Fhtmlpsfastapirmsfmustang: '-D%f-soff--help--version ----------- MUSTANG v.3 Command Line error! mustang: Unable to associate the argument 'Try 'mustang --help' for more information. mustang: Cannot use one or both of the -p or -i options in conjunction with -f option : Use either one or both of the -p or -i options or just the -f option mustang: unable to find enough structures in the info file: . Are you using the right format??? mustang: -p option takes exactly one argument. mustang: -i option takes atleast 2 arguments. mustang: -f option takes exactly one argument. mustang: -o option takes exactly one argument. mustang: -F option takes exactly one arguments. ' is an invalid argument for the -F option. : 'html', 'ps', 'fasta', 'pir', 'msf' are the only valid arguments. mustang: -D option takes either no or just one argument. mustang: -s option takes exactly one argument. mustang: "ON" or "OFF" are the only valid arguments for the -s option. mustang: --help option does not take any arguments. mustang: --version option does not take any arguments. mustang: Impossible to proceed without input structures! 0pA XCalculating Distance Matrices...@@( ||< ) >|| - CIS-PEPTIDE - ALPHA-HELIX - ESHEET - STRAND - NONE - LHELIX - NONE ----- 0Ib{Can't Proceed. The structure: contains more than one chain. At this moment this program requires the input pdb structures to contain just one chain. Hint! Edit the structure file by retaining If you are interested in more that one chain edit the input file such that you append all the interested chains together by eliminating the TER lines between them. Warning: these appended chains will be treated as contiguous. Can't Proceed. One or more input structures is unreabadle only the chain of interest Pairwise Comparisons: of ? Error in opening the PDB:%sPdb File Error: Structure Parsing the PDB file:  (....contains  residues.) [ OK ] does not exist in the path specified. h㈵>?A0@?L@>@B A@@??333333??ffffff??333333??? ---------------- ---------------- Error! Impossible...this just can't be! OG@@?too many iterations in jacobi=?cܥL@9RFߑ?in00.datin01.dat Invoking Fortran..... Back to C++...... Writing output to file.... out00.dat Done. ./super------- Extending Edge-Weights thro' intermediate structures...zD#t(knN@: HOLLER!!! Tree_status: Final Alignment using the extended weights.../data/blosum62_allpositives.datCould not find substitution matrix; needed to build a guide tree! ============================================ Similarity Matrix based on Global pairwise weighted bipartite matching scores: Tranformation into Distance Matrix(from Similarity) for guide tree construction: K **************BEFORE AFTER***************** Raw_Dist_Mat Changed_Dist_Mat Current Node LIST : CA REMARK Structures: REMARK REMARK ATOMTER END [ FAILED ] REMARK Produced by MUSTANG v.3REMARK Authors: A S Konagurthu, J C Whisstock, P J Stuckey, and A M Lesk REMARK All structures were superposed on the coordinate frame of: Superposing structures on the core: Too few matched columns to superpose on! No matched columns to superpose on! Superposing structures on the core:Hz>-C6?Too few structures to superpose: NSTRUCTS = Output alignment in pir: Error opening outfile:>P1;Output alignment in fasta:setrgbcolor mul sub moveto ) show %!PS-Adobe- %%Creator: MUSTANG v.3 %%CreationDate:%%EndComments 90 rotate # Aligned_structures: # %3d:%10d%8d%3d%5.1f%%6d%12d showpage 90 rotate %-10s%5d %c%5d%5s%16s showpage %5s Output alignment in msf: MSF of: from: 1 to: MSF: Type: P Check: 9999 ..Name: Len: Check: 9999 Weight: 1.00 // Output alignment in html: 

# Aligned_structures: 
# ## Length: # Identity:  (# Similarity: /# Gaps: /
MUSTANG v.3: A  Multiple structural alignment algorithm
# Authors: A. S. Konagurthu, J. C. Whisstock, and P. J. Stuckey,  A. M. Lesk
# Rundate: # Report_file: #====================================
%)  (Calculated as the percentage of conserved columns in the alignment.)%)  (Calculated as the percentage of semi-conserved columns in the alignment)%)  (Calculated as the percentage of columns with atleast one gap.)#===========================================ALIGNMENT START=========================================


style="BACKGROUND-COLOR: #C4C4C4">
#=========================================ALIGNMENT END=============================================
#LEGEND:
#
# Colours indicate the chemical nature of the amino acid;
# Red         = small hydrophobic including aromatic,{A,F,I,L,M,P,V,W}
# Blue        = Acidic,{D,E}
# Magenta     = Basic,{K,R} and
# Green       = Basic amino acids with hydroxyl groups and/or amine groups {C,G,H,N,Q,S,T,Y}.
#
# Residues in the alignment that are  shown in # CA-CA distances w.r.t. other members in their column of alignment are above the specified threshold.
#
# The "markup row" below each stretch of the multiple alignment is used to mark completely conserved
# residue (denoted in UPPERCASE) and semi-conserved reside ( denoted in lowercase) in a column of the alignment.
#
################################################EOF#################################################


								Authors:     				(Mis)Coding: MUSTANG.
Running Time :   s.Parsing the Command Line...CMD-LINE ARG ERROR:
	File-  does not exist!
       MUSTANG (v.3): A MUltiple STuructural AligNment alGorithm.       
    A S Konagurthu,  J Whisstock, and P J Stuckey, A M Lesk.
    A S Konagurthu.                                         
All Done! Thank you for using Wrong Command Line syntax! Use Syntax Given Below:
  
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