Import Debian changes 3a1-4.2debian/3a1-4.2

slib (3a1-4.2) unstable; urgency=low

  * Non-maintainer upload.
  * Add guile.init.local for use within the build dir, since otherwise we
    have an (earlier unnoticed) circular build-dep due to a difference
    between scm and guile.

slib (3a1-4.1) unstable; urgency=low

  * Non-maintainer upload.
  * Build-depend on guile-1.6 instead of scm, since the new version of
    scm is wedged in unstable (closes: #281809).

slib (3a1-4) unstable; urgency=low

  * Also check for expected creation on slibcat. (Closes: #240096)

slib (3a1-3) unstable; urgency=low

  * Also check for /usr/share/guile/1.6/slib before installing for guile
    1.6. (Closes: #239267)

slib (3a1-2) unstable; urgency=low

  * Add format.scm back into slib until gnucash stops using it.
  * Call guile-1.6 new-catalog (Closes: #238231)

slib (3a1-1) unstable; urgency=low

  * New upstream release
  * Remove Info section from doc-base file (Closes: #186950)
  * Remove period from end of description (linda, lintian)
  * html gen fixed upstream (Closes: #111778)

slib (2d4-2) unstable; urgency=low

  * Fix url for upstream source (Closes: #144981)
  * Fix typo in slib.texi (enquque->enqueue) (Closes: #147475)
  * Add build depends.

slib (2d4-1) unstable; urgency=low

  * New upstream.

slib (2d3-1) unstable; urgency=low

  * New upstream.
  * Remove texi2html call in debian/rules.  Now done upstream.  Add make
    html instead.
  * Changes to rules and doc-base to conform to upstream html gen
  * Clean up upstream makefile to make sure it cleans up after itself.

1 files changed, 54 insertions, 0 deletions

diff --git a/ncbi-dna.txi b/ncbi-dna.txi
new file mode 100644
index 0000000..9a5babc
--- /dev/null
+++ b/ncbi-dna.txi
@@ -0,0 +1,54 @@
+
+@defun ncbi:read-dna-sequence port
+
+Reads the NCBI-format DNA sequence following the word @samp{ORIGIN}
+from @var{port}.
+@end defun
+
+@defun ncbi:read-file file
+
+Reads the NCBI-format DNA sequence following the word @samp{ORIGIN}
+from @var{file}.
+@end defun
+
+@defun mrna<-cdna str
+
+Replaces @samp{T} with @samp{U} in @var{str}
+@end defun
+
+@defun codons<-cdna cdna
+
+Returns a list of three-letter symbol codons comprising the protein
+sequence encoded by @var{cdna} starting with its first occurence of
+@samp{atg}.
+@end defun
+
+@defun protein<-cdna cdna
+
+Returns a list of three-letter symbols for the protein sequence
+encoded by @var{cdna} starting with its first occurence of @samp{atg}.
+@end defun
+
+@defun p<-cdna cdna
+
+Returns a string of one-letter amino acid codes for the protein
+sequence encoded by @var{cdna} starting with its first occurence of
+@samp{atg}.
+@end defun
+
+These cDNA count routines provide a means to check the nucleotide
+sequence with the @samp{BASE COUNT} line preceding the sequence from
+NCBI.
+
+
+@defun cdna:base-count cdna
+
+Returns a list of counts of @samp{a}, @samp{c}, @samp{g}, and
+@samp{t} occurrencing in @var{cdna}.
+@end defun
+
+@defun cdna:report-base-count cdna
+
+Prints the counts of @samp{a}, @samp{c}, @samp{g}, and @samp{t}
+occurrencing in @var{cdna}.
+@end defun