Two local/root jars produces incorrect classpath

[cnuernber]

Try running lein repl with included files.
You should see sa-jdi.jar on the classpath but you will not:

issue.zip

chrisn@chrisn-dt:~/dev/tech.all/tech.jdi$ clj -R:test
Clojure 1.9.0
user=> (-> (ClassLoader/getSystemClassLoader)
(.getURLs)
(vec))
[#object[java.net.URL 0x4af0df05 "file:/home/chrisn/dev/tech.all/tech.jdi/src/"] 
 #object[java.net.URL 0x57ea113a "file:/home/chrisn/.m2/repository/org/clojure/clojure/1.9.0/clojure-1.9.0.jar"]
 #object[java.net.URL 0xacdb094 "file:/home/chrisn/.m2/repository/camel-snake-kebab/camel-snake-kebab/0.4.0/camel-snake-kebab-0.4.0.jar"] 
 #object[java.net.URL 0x674bd420 "file:/home/chrisn/.m2/repository/techascent/tech.resource/4.0/tech.resource-4.0.jar"] 
 #object[java.net.URL 0x2b0f373b "file:/usr/lib/jvm/java-8-openjdk-amd64/lib/tools.jar"]  
 #object[java.net.URL 0x2ceb80a1 "file:/usr/lib/jvm/java-8-openjdk-amd64/lib/sa-jdi.jar"] 
 #object[java.net.URL 0x4b45dcb8 "file:/home/chrisn/.m2/repository/org/clojure/spec.alpha/0.1.143/spec.alpha-0.1.143.jar"] 
 #object[java.net.URL 0x7216fb24 "file:/home/chrisn/.m2/repository/org/clojure/core.specs.alpha/0.1.24/core.specs.alpha-0.1.24.jar"]]

chrisn@chrisn-dt:~/dev/tech.all/tech.jdi$ lein repl
If there are a lot of uncached dependencies this might take a while ...
nREPL server started on port 44227 on host 127.0.0.1 - nrepl://127.0.0.1:44227
REPL-y 0.3.7, nREPL 0.2.12
Clojure 1.9.0
OpenJDK 64-Bit Server VM 1.8.0_191-8u191-b12-0ubuntu0.18.04.1-b12
    Docs: (doc function-name-here)
          (find-doc "part-of-name-here")
  Source: (source function-name-here)
 Javadoc: (javadoc java-object-or-class-here)
    Exit: Control+D or (exit) or (quit)
 Results: Stored in vars *1, *2, *3, an exception in *e

user=> (-> (ClassLoader/getSystemClassLoader)
  #_=> (.getURLs)
  #_=> (vec))
[#object[java.net.URL 0x68f8a35e "file:/home/chrisn/dev/tech.all/tech.jdi/test"] 
 #object[java.net.URL 0x7925497 "file:/home/chrisn/dev/tech.all/tech.jdi/src/"] 
 #object[java.net.URL 0x69ea7a84 "file:/home/chrisn/dev/tech.all/tech.jdi/src/"] 
 #object[java.net.URL 0x189aa604 "file:/home/chrisn/dev/tech.all/tech.jdi/dev-resources"] 
 #object[java.net.URL 0x35d5141a "file:/home/chrisn/dev/tech.all/tech.jdi/resources"] 
 #object[java.net.URL 0x20f6d8db "file:/home/chrisn/dev/tech.all/tech.jdi/target/classes/"] 
 #object[java.net.URL 0x1a72a81b "file:/home/chrisn/.m2/repository/org/clojure/tools.nrepl/0.2.12/tools.nrepl-0.2.12.jar"] 
 #object[java.net.URL 0x571587d7 "file:/home/chrisn/.m2/repository/clojure-complete/clojure-complete/0.2.4/clojure-complete-0.2.4.jar"] 
 #object[java.net.URL 0x4a7d2ceb "file:/home/chrisn/.m2/repository/org/clojure/clojure/1.9.0/clojure-1.9.0.jar"] 
 #object[java.net.URL 0x5c5b057f "file:/home/chrisn/.m2/repository/camel-snake-kebab/camel-snake-kebab/0.4.0/camel-snake-kebab-0.4.0.jar"] 
 #object[java.net.URL 0x53e65c9f "file:/home/chrisn/.m2/repository/techascent/tech.resource/4.0/tech.resource-4.0.jar"] 
 #object[java.net.URL 0x28b6420b "file:/home/chrisn/.m2/repository/org/clojure/spec.alpha/0.1.143/spec.alpha-0.1.143.jar"] 
 #object[java.net.URL 0xb8f2982 "file:/home/chrisn/.m2/repository/org/clojure/core.specs.alpha/0.1.24/core.specs.alpha-0.1.24.jar"]]

Running this from emacs repl I get another answer

(->> (ClassLoader/getSystemClassLoader)
           (.getURLs)
           (mapv str))
["file:/home/chrisn/dev/tech.all/tech.jdi/test"
 "file:/home/chrisn/dev/tech.all/tech.jdi/src/"
 "file:/home/chrisn/dev/tech.all/tech.jdi/src/"
 "file:/home/chrisn/dev/tech.all/tech.jdi/dev-resources"
 "file:/home/chrisn/dev/tech.all/tech.jdi/resources"
 "file:/home/chrisn/dev/tech.all/tech.jdi/target/classes/"
 "file:/home/chrisn/.m2/repository/camel-snake-kebab/camel-snake-kebab/0.4.0/camel-snake-kebab-0.4.0.jar"
 "file:/home/chrisn/.m2/repository/techascent/tech.resource/4.0/tech.resource-4.0.jar"
 "file:/home/chrisn/.m2/repository/nrepl/nrepl/0.4.4/nrepl-0.4.4.jar"
 "file:/home/chrisn/.m2/repository/clojure-complete/clojure-complete/0.2.4/clojure-complete-0.2.4.jar"
 "file:/home/chrisn/.m2/repository/org/clojure/tools.nrepl/0.2.13/tools.nrepl-0.2.13.jar"
 "file:/home/chrisn/.m2/repository/org/clojure/clojure/1.9.0/clojure-1.9.0.jar"
 "file:/home/chrisn/.m2/repository/org/clojure/core.specs.alpha/0.1.24/core.specs.alpha-0.1.24.jar"
 "file:/home/chrisn/.m2/repository/org/clojure/tools.logging/0.4.1/tools.logging-0.4.1.jar"
 "file:/home/chrisn/.m2/repository/cider/cider-nrepl/0.18.0/cider-nrepl-0.18.0.jar"
 "file:/home/chrisn/.m2/repository/org/clojure/spec.alpha/0.1.143/spec.alpha-0.1.143.jar"
 "file:/usr/lib/jvm/java-8-openjdk-amd64/lib/tools.jar"]

It seems like the /usr/lib path is getting thrown away because it has the same root or something like that.

I noticed that leinize multimethod does not support :jar manifest type. And the classpath pathway filters it out.