diff -ruN --exclude=CVS --exclude=.svn /usr/ports/biology/emboss/Makefile /usr/ports/wip/emboss/Makefile
--- /usr/ports/biology/emboss/Makefile	2021-09-06 10:26:04.797733000 -0500
+++ /usr/ports/wip/emboss/Makefile	2021-09-15 08:34:15.675327000 -0500
@@ -2,7 +2,7 @@
 
 PORTNAME=	emboss
 PORTVERSION=	6.6.0
-PORTREVISION=	5
+PORTREVISION=	6
 CATEGORIES=	biology
 MASTER_SITES=	ftp://emboss.open-bio.org/pub/EMBOSS/
 DISTNAME=	${PORTNAME:tu}-${PORTVERSION}
@@ -50,6 +50,9 @@
 post-patch:
 	@${REINPLACE_CMD} -e 's/-liconv/${ICONV_LIB}/' ${WRKSRC}/configure
 
+post-build:
+	${CC} -DEMBOSS_PREFIX="\"${PREFIX}\"" ${FILESDIR}/emboss.c -o ${WRKDIR}/emboss
+
 pre-install:
 	@ ${REINPLACE_CMD} -e 's#%%DATADIR%%#${PREFIX}/share/${PORTNAME:tu}#' ${CONFIG_FILE}
 
@@ -57,5 +60,6 @@
 	@${MKDIR} ${STAGEDIR}${LOCALBASE}/bin
 	${INSTALL_SCRIPT} ${WRKDIR}/emboss-shell ${STAGEDIR}${LOCALBASE}/bin
 	${INSTALL_DATA} ${CONFIG_FILE} ${STAGEDIR}${DATADIR}
+	${INSTALL_PROGRAM} ${WRKDIR}/emboss ${STAGEDIR}${LOCALBASE}/bin
 
 .include <bsd.port.mk>
diff -ruN --exclude=CVS --exclude=.svn /usr/ports/biology/emboss/distinfo /usr/ports/wip/emboss/distinfo
--- /usr/ports/biology/emboss/distinfo	2021-09-06 10:26:04.797780000 -0500
+++ /usr/ports/wip/emboss/distinfo	2021-06-12 09:21:58.597608000 -0500
@@ -1,3 +1,2 @@
-TIMESTAMP = 1630940920
 SHA256 (emboss/EMBOSS-6.6.0.tar.gz) = 7184a763d39ad96bb598bfd531628a34aa53e474db9e7cac4416c2a40ab10c6e
 SIZE (emboss/EMBOSS-6.6.0.tar.gz) = 117962028
diff -ruN --exclude=CVS --exclude=.svn /usr/ports/biology/emboss/files/emboss.c /usr/ports/wip/emboss/files/emboss.c
--- /usr/ports/biology/emboss/files/emboss.c	1969-12-31 18:00:00.000000000 -0600
+++ /usr/ports/wip/emboss/files/emboss.c	2021-09-13 10:12:18.608856000 -0500
@@ -0,0 +1,59 @@
+/***************************************************************************
+ *  Description:
+ *      Wrapper to turn emboss commands into subcommands.  The emboss suite
+ *      contains executables that conflict with multiple other software
+ *      packages and therefore cannot be safely installed directly under a
+ *      standard prefix.  This wrapper can be installed under the standard
+ *      PATH and used to to execute emboss commands installed under a
+ *      private prefix, without altering PATH, activating a special
+ *      environment, opening a container, etc.  This sub-command paradigm
+ *      is already familiar to bioinformaticians thanks to other suites
+ *      like samtools, bedtools, etc.
+ *
+ *      Example:
+ *
+ *          emboss seqret args
+ *
+ *      instead of one of the following:
+ *
+ *          prefix/bin/seqret args
+ *
+ *          env PATH=prefix/bin:$PATH seqret args
+ *
+ *          conda activate emboss
+ *          seqret args
+ *
+ *  Arguments:
+ *      The full emboss command you would use if it were in PATH.
+ *
+ *  Compile with EMBOSS_PREFIX set to the parent of the bin directory
+ *  containing the emboss binaries.
+ *
+ *  History: 
+ *  Date        Name        Modification
+ *  2021-09-13  Jason Bacon Begin
+ ***************************************************************************/
+
+#include <stdio.h>
+#include <sysexits.h>
+#include <limits.h>
+#include <unistd.h>
+
+#ifndef EMBOSS_PREFIX
+#define EMBOSS_PREFIX   "/usr/local/emboss"
+#endif
+
+int     main(int argc,char *argv[])
+
+{
+    char    cmd[PATH_MAX + 1];
+    
+    if ( argc < 2 )
+    {
+        fprintf(stderr, "Usage: %s emboss-command [args]\n", argv[0]);
+        return EX_USAGE;
+    }
+
+    snprintf(cmd, PATH_MAX, "%s/bin/%s", EMBOSS_PREFIX, argv[1]);
+    execv(cmd, argv + 1);
+}
diff -ruN --exclude=CVS --exclude=.svn /usr/ports/biology/emboss/pkg-plist /usr/ports/wip/emboss/pkg-plist
--- /usr/ports/biology/emboss/pkg-plist	2021-09-06 10:26:04.798288000 -0500
+++ /usr/ports/wip/emboss/pkg-plist	2021-09-13 09:14:29.686623000 -0500
@@ -77,6 +77,7 @@
 bin/edamname
 bin/edialign
 bin/einverted
+%%LOCALBASE%%/bin/emboss
 %%LOCALBASE%%/bin/emboss-shell
 bin/embossdata
 bin/embossupdate