1. Compiled executables from bin directory have been moved to $BIRCH/bin-$BIRCH_PLATFORM

-rwxrwxr-x. 1 psgendb psgendb 1470936 Nov 12 17:55 lastal
-rwxrwxr-x. 1 psgendb psgendb  360120 Nov 12 17:54 lastdb
-rwxrwxr-x. 1 psgendb psgendb   23160 Nov 12 17:55 last-merge-batches
-rwxrwxr-x. 1 psgendb psgendb   99352 Nov 12 17:55 last-pair-probs
-rwxrwxr-x. 1 psgendb psgendb  260736 Nov 12 17:55 last-split


2. shell scripts and python scripts have been moved to last/scripts.
Symbolic links have been made to these scripts from $BIRCH/script.

-rwxrwxr-x. 1 psgendb psgendb  2590 Nov 12 18:02 fasta-nr
-rwxrwxr-x. 1 psgendb psgendb   518 Oct  9 17:54 fastq-interleave
-rwxrwxr-x. 1 psgendb psgendb 48524 Nov 12 16:41 last-dotplot
-rwxrwxr-x. 1 psgendb psgendb  4909 Nov 12 18:03 last-map-probs
-rwxrwxr-x. 1 psgendb psgendb  5542 Nov 12 18:04 last-postmask
-rwxrwxr-x. 1 psgendb psgendb 40155 Nov 12 18:04 last-train
-rwxrwxr-x. 1 psgendb psgendb 44812 Nov 12 18:04 maf-convert
-rwxrwxr-x. 1 psgendb psgendb  7878 Nov 12 18:04 maf-cut
-rwxrwxr-x. 1 psgendb psgendb  9222 Nov 12 18:05 maf-join
-rwxrwxr-x. 1 psgendb psgendb  2027 Oct  9 17:54 maf-sort
-rwxrwxr-x. 1 psgendb psgendb  5269 Nov 12 18:05 maf-swap
-rwxrwxr-x. 1 psgendb psgendb    61 Oct  9 17:54 parallel-fasta
-rwxrwxr-x. 1 psgendb psgendb    50 Oct  9 17:54 parallel-fastq


The exception is last-dotplot. We need to set PYTHONPATH
to find the pillow libraries, so $BIRCH/script/last-dotplot is a 
wrapper script that does this, and then calls last-dotplot.

3. The first line of all python scripts has been changed to 
#! /usr/bin/env python3
