X-Git-Url: http://mmka.chem.univ.gda.pl/gitweb/?a=blobdiff_plain;ds=sidebyside;f=django_simple%2Ftodo%2Ftemplates%2Foutputs.html;h=1399dda2b0ee12a5963c0df88b01952a2e5f510d;hb=1b9e4cd5192fafe2213b582fadd19556fb2ecf3a;hp=806afc4b325d941f1b27f13fb1b40827be540705;hpb=a2b1056ddd4ae89d0ba9ac2e7638ec28e103be45;p=django_unres.git
diff --git a/django_simple/todo/templates/outputs.html b/django_simple/todo/templates/outputs.html
index 806afc4..1399dda 100644
--- a/django_simple/todo/templates/outputs.html
+++ b/django_simple/todo/templates/outputs.html
@@ -38,15 +38,15 @@ Contents
Summary of the files
The structure of the main output file (out)
+ HREF="outputs.html#SECTION00042000000000000000">The structure of the main output file
The thermodynamic quantity and ensemble average (thermal) files
The conformation summary with classification (stat) files
-The histogram files
The rmsd-radius of gyration potential of mean force files
+ HREF="outputs.html#SECTION00046000000000000000">The rmsd-radius of gyration potential of mean force files -->
The PDB files
These files are written in PDB standard (see. e.g.,
-ftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions/Format_v33_Letter.pdfftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions). The REMARK, ATOM, SSBOND, HELIX, SHEET, CONECT, TER, and ENDMDL are used.
+ftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions). The REMARK, ATOM, SSBOND, HELIX, SHEET, CONECT, TER, and ENDMDL are used.
The Cα
(marked CA) and SC (marked CB) coordinates are output. The CONECT
records specify the Cα - Cα and Cα - SC virtual bonds. Secondary
@@ -444,6 +444,7 @@ Summary of the files
file.cx - the compressed UNRES coordinate file with information to compute the probability of a given conformation at any temperature.
+
@@ -544,7 +546,7 @@ Bits s, c, and h of level 1 are explained in point 2; bits c and h of level 2 pe
-The structure of the main output file (out)
+The structure of the main output file
@@ -850,6 +852,7 @@ The octal/quaternary/binary numbers denoting the class for a fragment at level 1
+
@@ -911,7 +914,7 @@ The PDB files
The PDB files with names file_[slice_xx_]Tyyy.pdb, where Tyyy specifies a given replica temperature contain the conformations whose probabilities at replica temperature T sum to 0.99, after sorting the conformations
-by probabilities in descending order. The PDB files follow the standard format; see ftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions/Format_v33_Letter.pdfftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions.
+by probabilities in descending order. The PDB files follow the standard format; see ftp://ftp.wwpdb.org/pub/pdb/doc/format_descriptions.
For single-chain proteins, an example is as follows: