/bin/bash: compile: command not found when using MAKE

[jiecon...@gmail.com]

When I tried to Installing MEME command line programs and the website on Ubuntu 16.04, I got the "compile /bin/bash: compile: command not found" error.

My configuration is 

./configure   --prefix=$HOME/meme_5   --enable-build-libxml2 --enable-build-libxslt --enable-web --with-url=http://host/meme_5.0

Here is my Make.log

make  all-recursive

make[1]: Entering directory '/home/jieconlin3/opt/meme-5.0.1'

Making all in src

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src'

make  all-recursive

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src'

Making all in filters

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/filters'

Making all in purge

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/filters/purge'

make[5]: Nothing to be done for 'all'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/filters/purge'

Making all in dust

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/filters/dust'

make[5]: Nothing to be done for 'all'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/filters/dust'

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/filters'

make[5]: Nothing to be done for 'all-am'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/filters'

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/filters'

Making all in libxml2

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2'

Making all in include

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include'

Making all in .

make[6]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include'

make[6]: Nothing to be done for 'all-am'.

make[6]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include'

Making all in libxml

make[6]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include/libxml'

make[6]: Nothing to be done for 'all'.

make[6]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include/libxml'

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2/include'

Making all in .

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2'

make[5]: Nothing to be done for 'all-am'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2'

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxml2'

Making all in libxslt

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libxslt'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libxslt'

Making all in libexslt

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/libexslt'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/libexslt'

Making all in .

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src'

make[4]: Nothing to be done for 'all-am'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src'

Making all in parallel

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/src/parallel'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src/parallel'

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src'

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/src'

Making all in scripts

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/scripts'

make[2]: Nothing to be done for 'all'.

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/scripts'

Making all in tests

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests'

Making all in ame

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/ame'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/ame'

Making all in clustalw2fasta

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/clustalw2fasta'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/clustalw2fasta'

Making all in centrimo

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/centrimo'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/centrimo'

Making all in common

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/common'

Making all in motif.crp0

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/common/motif.crp0'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/common/motif.crp0'

Making all in motif.Puf3p

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/common/motif.Puf3p'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/common/motif.Puf3p'

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/common'

make[4]: Nothing to be done for 'all-am'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/common'

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/common'

Making all in create-priors

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/create-priors'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/create-priors'

Making all in draw-mhmm

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/draw-mhmm'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/draw-mhmm'

Making all in dreme

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/dreme'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/dreme'

Making all in fasta-center

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/fasta-center'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/fasta-center'

Making all in fimo

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/fimo'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/fimo'

Making all in glam2

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/glam2'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/glam2'

Making all in glam2scan

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/glam2scan'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/glam2scan'

Making all in gomo

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/gomo'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/gomo'

Making all in mast

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/mast'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/mast'

Making all in mcast

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/mcast'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/mcast'

Making all in meme

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/meme'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/meme'

Making all in meme-chip

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/meme-chip'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/meme-chip'

Making all in mhmm

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmm'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmm'

Making all in mhmms

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmms'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmms'

Making all in momo

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/momo'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/momo'

Making all in mhmmscan

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmmscan'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/mhmmscan'

Making all in motiph

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/motiph'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/motiph'

Making all in psp-gen

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/psp-gen'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/psp-gen'

Making all in qvalue

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/qvalue'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/qvalue'

Making all in scaffold

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/scaffold'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/scaffold'

Making all in spamo

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/spamo'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/spamo'

Making all in tomtom

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/tomtom'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/tomtom'

Making all in web

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/web'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/web'

Making all in scripts

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests/scripts'

make[3]: Nothing to be done for 'all'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests/scripts'

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/tests'

make[3]: Nothing to be done for 'all-am'.

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests'

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/tests'

Making all in doc

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc'

make  all-recursive

make[3]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc'

Making all in examples

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples'

Making all in compute_prior_dist_example_output_files

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples/compute_prior_dist_example_output_files'

make[5]: Nothing to be done for 'all'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples/compute_prior_dist_example_output_files'

Making all in sample_opal_scripts

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples/sample_opal_scripts'

make[5]: Nothing to be done for 'all'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples/sample_opal_scripts'

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples'

make[5]: Nothing to be done for 'all-am'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples'

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/examples'

Making all in images

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/images'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/images'

Making all in css

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/css'

make[4]: Nothing to be done for 'all'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/css'

Making all in js

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/js'

make  all-am

make[5]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc/js'

make[5]: Nothing to be done for 'all-am'.

make[5]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/js'

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc/js'

make[4]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/doc'

make[4]: Nothing to be done for 'all-am'.

make[4]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc'

make[3]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc'

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/doc'

Making all in etc

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1/etc'

make[2]: Nothing to be done for 'all'.

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1/etc'

make[2]: Entering directory '/home/jieconlin3/opt/meme-5.0.1'

compile

/bin/bash: compile: command not found

Makefile:1176: recipe for target 'all-local' failed

make[2]: *** [all-local] Error 127

make[2]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1'

Makefile:730: recipe for target 'all-recursive' failed

make[1]: *** [all-recursive] Error 1

make[1]: Leaving directory '/home/jieconlin3/opt/meme-5.0.1'

Makefile:661: recipe for target 'all' failed

make: *** [all] Error 2

[CharlesEGrant]

The "compile not found" message ndicates that  you don't have the Java build tool, ant, installed on your system. To install the MEME Suite web applications, you'll need to have the Java SDK, Tomcat, and Jakarta Ant installed on your system. Note that we don't recommend trying to set up the MEME Suite web applications unless you have substantial experience as as system administrator, and in particular, in configuring Tomcat. While we are happy to answer any questions directly related to using the MEME Suite command line tools, we will provide only limited assistance in setting up the web server. We simply don't have the resources to act as remote system administrators.