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Ricardo Honorato-Zimmer rhz

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@rhz
rhz / float-precision.patch
Last active Aug 29, 2015
KaSim: show all digits for float numbers (eg time) in output file
View float-precision.patch
diff --git main/main.ml main/main.ml
index fa98968..86c90ff 100644
--- main/main.ml
+++ main/main.ml
@@ -37,6 +37,7 @@ let main =
("-load-sim", Arg.String (fun file -> Parameter.marshalizedInFile := file) , "load simulation package instead of kappa files") ;
("-make-sim", Arg.String (fun file -> Parameter.marshalizedOutFile := file) , "save kappa files as a simulation package") ;
("--implicit-signature", Arg.Unit (fun () -> Parameter.implicitSignature := true), "Program will guess agent signatures automatically") ;
+ ("--float-precision", Arg.Int (fun p -> Parameter.floatPrecision := Some p), "Use given precision to print floating point numbers (e.g. time)") ;
("-seed", Arg.Int (fun i -> Parameter.seedValue := Some i), "Seed for the random number generator") ;
@rhz
rhz / gist:38398cf037aa9eb85cf0
Created Sep 26, 2014
"make all" output of mois-fba
View gist:38398cf037aa9eb85cf0
mkdir -p lib
cp /home/rhz/src/scala/mois-fba/tmp/lib/libglpk.so /home/rhz/src/scala/mois-fba/tmp/lib/jni/libglpk_java.so /home/rhz/src/scala/mois-fba/tmp/share/java/glpk-java.jar lib
sbt -batch -no-colors compile
[info] Loading project definition from /home/rhz/src/scala/mois-fba/project
[info] Set current project to mois-fba (in build file:/home/rhz/src/scala/mois-fba/)
[info] Compiling 2 Scala sources to /home/rhz/src/scala/mois-fba/target/scala-2.11/classes...
[error] /home/rhz/src/scala/mois-fba/src/main/scala/uk/ac/ed/inf/mois/fba/Linear.scala:36: object RateLawReactionNetwork is not a member of package uk.ac.ed.inf.mois.reaction
[error] import uk.ac.ed.inf.mois.reaction.RateLawReactionNetwork
[error]  ^
[error] /home/rhz/src/scala/mois-fba/src/main/scala/uk/ac/ed/inf/mois/fba/Linear.scala:38: object Bounds is not a member of package uk.ac.ed.inf.mois
View multi-pred.clj
(defmacro multi-pred [& preds]
`(fn [& args]
(and ~@(for [pred preds]
`(apply ~pred args)))))
View gist:641036
(defrecord Agent [id name states bindings])
(defn a1 [bs ba]
(Agent. 1 :a1 {"x" ""} {"x" [bs (delay (ba "x" a1))]}))
(defn a2 [bs ba]
(Agent. 2 :a2 {"z" ""} {"z" [bs (delay (ba "z" a2))]}))
;; user> (a1 "z" a2) ; why stack overflow?
View gist:661549
(add-to-list 'load-path (expand-file-name "~/emacs/lisp/auto-complete-1.2/"))
(require 'auto-complete-config)
(add-to-list 'ac-dictionary-directories "~/emacs/lisp/auto-complete-1.2/dict/")
(ac-config-default)
View gist:668294
(defn get-complexes
"Returns a seq with the ids of the complexes in expr (which is a
map from id (Integer) to Kappa agent)."
[expr]
(if (:complexes (meta expr)) (:complexes (meta expr))
(let [get-complex (partial complex expr)]
(loop [remaining expr
last-complex #{}
groups (transient [])]
(let [remaining (remove (comp last-complex key) remaining)]
View gist:668678
No message.
[Thrown class java.lang.IndexOutOfBoundsException]
Restarts:
0: [QUIT] Quit to the SLIME top level
1: [ABORT] ABORT to SLIME level 0
Backtrace:
0: clojure.lang.PersistentVector.arrayFor(PersistentVector.java:106)
1: clojure.lang.PersistentVector.nth(PersistentVector.java:110)
@rhz
rhz / gist:671969
Created Nov 11, 2010
pak -Ss QUERY
View gist:671969
diff --git a/main.lisp b/main.lisp
index 0dfaf15..ec5730e 100644
--- a/main.lisp
+++ b/main.lisp
@@ -270,6 +270,17 @@ Returns T upon successful installation, NIL otherwise."
(get-pkgbuild pkg-name)
(quit)))))))))
+(defun search-packages (query)
+ (maybe-refresh-cache)
View empty-counted-sorted-set-disj-get.patch
diff --git a/src/main/clojure/clojure/data/finger_tree.clj b/src/main/clojure/clojure/data/finger_tree.clj
index bc00343..557aaaf 100644
--- a/src/main/clojure/clojure/data/finger_tree.clj
+++ b/src/main/clojure/clojure/data/finger_tree.clj
@@ -537,13 +537,17 @@
(count [_] (:len (measured tree)))
IPersistentSet
(disjoin [this k]
- (let [[l x r] (split-tree tree #(>= 0 (cmpr k (:right %))))]
- (if (= x k)
View gist:834802
(defn prob-n [pred tol in n] ;; in is a csv's filename
(let [as (for [[_ _ p m] (map #(.split % ";") (rest (.split (slurp in) "\n"))) :when p]
(if (empty? m) [p] [p m])) ;; take the third and fourth (if possible) column of each row
conteo (for [as (c/combinations as n)]
(if (apply pred tol as) 1 0))]
(/ (reduce + conteo) (count conteo))))
(defn ningun-apellido-en-comun [tol & as]
(let [distinct-as (distinct (apply concat as))
conteo (for [a distinct-as]
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