Merge pull request #80 from Burke-Lauenroth-Lab/Betarandom

Beta random generator was added
DrylandEcology · Nov 9, 2017 · ca87d4f · ca87d4f
2 parents 118f3a5 + 78f82d8
commit ca87d4f
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diff --git a/.travis.yml b/.travis.yml
@@ -2,4 +2,8 @@ language: c
 compiler:
   - clang
   - gcc
-script: make compilel
+script:
+  - make compilel
+  - make gtest
+  - ./sw_test
+  - make cleaner
diff --git a/appveyor.yml b/appveyor.yml
@@ -5,7 +5,13 @@ platform:
 matrix:
   fast_finish: true
 
+install:
+  - git submodule update --init --recursive
+
 # to run your custom scripts instead of automatic MSBuild
 build_script:
   - set PATH=%PATH%;c:\cygwin\bin
   - make compile
+  - make gtest
+  - sw_test.exe
+  - make gtest_clean cleaner
diff --git a/doc/html/generic_8h.html b/doc/html/generic_8h.html
@@ -799,7 +799,7 @@ <h2 class="memtitle"><span class="permalink"><a href="#affe776513b24d84b39af8ab0
       </table>
 </div><div class="memdoc">
 
-<p class="reference">Referenced by <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">RandUni_fast()</a>, <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">RandUni_good()</a>, <a class="el" href="_s_w___markov_8h.html#a90a854462e03f8a79c1c2755f8bcc668">SW_MKV_today()</a>, and <a class="el" href="_s_w___sky_8h.html#af926d383d17bda1b210d39b2320b2008">SW_SKY_init()</a>.</p>
+<p class="reference">Referenced by <a class="el" href="rands_8c.html#aeecd655ab3f03f24d50688e6776586b3">RandBeta()</a>, <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">RandUni_fast()</a>, <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">RandUni_good()</a>, <a class="el" href="_s_w___markov_8h.html#a90a854462e03f8a79c1c2755f8bcc668">SW_MKV_today()</a>, and <a class="el" href="_s_w___sky_8h.html#af926d383d17bda1b210d39b2320b2008">SW_SKY_init()</a>.</p>
 
 </div>
 </div>
@@ -843,7 +843,7 @@ <h2 class="memtitle"><span class="permalink"><a href="#ac6afabdc09a49a433ee19d8a
       </table>
 </div><div class="memdoc">
 
-<p class="reference">Referenced by <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">RandUni_fast()</a>, <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">RandUni_good()</a>, and <a class="el" href="_s_w___sky_8h.html#af926d383d17bda1b210d39b2320b2008">SW_SKY_init()</a>.</p>
+<p class="reference">Referenced by <a class="el" href="rands_8c.html#aeecd655ab3f03f24d50688e6776586b3">RandBeta()</a>, <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">RandUni_fast()</a>, <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">RandUni_good()</a>, and <a class="el" href="_s_w___sky_8h.html#af926d383d17bda1b210d39b2320b2008">SW_SKY_init()</a>.</p>
 
 </div>
 </div>
@@ -893,7 +893,7 @@ <h2 class="memtitle"><span class="permalink"><a href="#ac4acb71b4114d72176466f9b
       </table>
 </div><div class="memdoc">
 
-<p class="reference">Referenced by <a class="el" href="_s_w___flow__lib_8h.html#a3bdea7cd6604199ad49673c073470038">petfunc()</a>, and <a class="el" href="rands_8h.html#a360602f9de1bde286cb454a0e07c2808">RandNorm()</a>.</p>
+<p class="reference">Referenced by <a class="el" href="_s_w___flow__lib_8h.html#a3bdea7cd6604199ad49673c073470038">petfunc()</a>, <a class="el" href="rands_8c.html#aeecd655ab3f03f24d50688e6776586b3">RandBeta()</a>, and <a class="el" href="rands_8h.html#a360602f9de1bde286cb454a0e07c2808">RandNorm()</a>.</p>
 
 </div>
 </div>

diff --git a/doc/html/globals_func_g.html b/doc/html/globals_func_g.html
@@ -83,6 +83,9 @@
 &#160;
 
 <h3><a id="index_g"></a>- g -</h3><ul>
+<li>genbet()
+: <a class="el" href="rands_8h.html#a7c113f4c25479e9dd7b60b2c382258fb">rands.h</a>
+</li>
 <li>GetALine()
 : <a class="el" href="filefuncs_8c.html#a656ed10e1e8aadb73c9de41b827f8eee">filefuncs.c</a>
 , <a class="el" href="filefuncs_8h.html#a656ed10e1e8aadb73c9de41b827f8eee">filefuncs.h</a>
@@ -91,12 +94,12 @@ <h3><a id="index_g"></a>- g -</h3><ul>
 : <a class="el" href="filefuncs_8c.html#a0ddb6e2ce212307107a4da5decefcfee">filefuncs.c</a>
 </li>
 <li>grass_EsT_partitioning()
-: <a class="el" href="_s_w___flow__lib_8h.html#a509909394ec87616d70b0f98ff790bb6">SW_Flow_lib.h</a>
-, <a class="el" href="_s_w___flow__lib_8c.html#a509909394ec87616d70b0f98ff790bb6">SW_Flow_lib.c</a>
+: <a class="el" href="_s_w___flow__lib_8c.html#a509909394ec87616d70b0f98ff790bb6">SW_Flow_lib.c</a>
+, <a class="el" href="_s_w___flow__lib_8h.html#a509909394ec87616d70b0f98ff790bb6">SW_Flow_lib.h</a>
 </li>
 <li>grass_intercepted_water()
-: <a class="el" href="_s_w___flow__lib_8c.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.c</a>
-, <a class="el" href="_s_w___flow__lib_8h.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.h</a>
+: <a class="el" href="_s_w___flow__lib_8h.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.h</a>
+, <a class="el" href="_s_w___flow__lib_8c.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.c</a>
 </li>
 </ul>
 </div><!-- contents -->

diff --git a/doc/html/globals_func_r.html b/doc/html/globals_func_r.html
@@ -86,37 +86,40 @@ <h3><a id="index_r"></a>- r -</h3><ul>
 <li>R_init_rSOILWAT2()
 : <a class="el" href="_s_w___r__init_8c.html#a48cfcac76cca8ad995276bac0f160cbc">SW_R_init.c</a>
 </li>
+<li>RandBeta()
+: <a class="el" href="rands_8c.html#aeecd655ab3f03f24d50688e6776586b3">rands.c</a>
+</li>
 <li>RandNorm()
-: <a class="el" href="rands_8c.html#a360602f9de1bde286cb454a0e07c2808">rands.c</a>
-, <a class="el" href="rands_8h.html#a360602f9de1bde286cb454a0e07c2808">rands.h</a>
+: <a class="el" href="rands_8h.html#a360602f9de1bde286cb454a0e07c2808">rands.h</a>
+, <a class="el" href="rands_8c.html#a360602f9de1bde286cb454a0e07c2808">rands.c</a>
 </li>
 <li>RandSeed()
 : <a class="el" href="rands_8c.html#ad17d320703c92d263551310bab8aedb5">rands.c</a>
 , <a class="el" href="rands_8h.html#ad17d320703c92d263551310bab8aedb5">rands.h</a>
 </li>
 <li>RandUni_fast()
-: <a class="el" href="rands_8c.html#a76d078c2fef9e6b9d163f000d11c9346">rands.c</a>
-, <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">rands.h</a>
+: <a class="el" href="rands_8h.html#a76d078c2fef9e6b9d163f000d11c9346">rands.h</a>
+, <a class="el" href="rands_8c.html#a76d078c2fef9e6b9d163f000d11c9346">rands.c</a>
 </li>
 <li>RandUni_good()
 : <a class="el" href="rands_8c.html#a6b2c3e2421d50b10f64a632c56f3cdaa">rands.c</a>
 , <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">rands.h</a>
 </li>
 <li>RandUniList()
-: <a class="el" href="rands_8h.html#ac710bab1ea1ca04eb37a4095cebe1450">rands.h</a>
-, <a class="el" href="rands_8c.html#a99ad06019a6dd764a7150a67d55dc30c">rands.c</a>
+: <a class="el" href="rands_8c.html#a99ad06019a6dd764a7150a67d55dc30c">rands.c</a>
+, <a class="el" href="rands_8h.html#ac710bab1ea1ca04eb37a4095cebe1450">rands.h</a>
 </li>
 <li>RandUniRange()
-: <a class="el" href="rands_8h.html#a5b70649d47341d10706e3a587294d589">rands.h</a>
-, <a class="el" href="rands_8c.html#a5b70649d47341d10706e3a587294d589">rands.c</a>
+: <a class="el" href="rands_8c.html#a5b70649d47341d10706e3a587294d589">rands.c</a>
+, <a class="el" href="rands_8h.html#a5b70649d47341d10706e3a587294d589">rands.h</a>
 </li>
 <li>remove_from_soil()
-: <a class="el" href="_s_w___flow__lib_8c.html#a3a09cb656bc69c7373a2d01cb06b0700">SW_Flow_lib.c</a>
-, <a class="el" href="_s_w___flow__lib_8h.html#a719179c043543e75ab34fa0279be09d3">SW_Flow_lib.h</a>
+: <a class="el" href="_s_w___flow__lib_8h.html#a719179c043543e75ab34fa0279be09d3">SW_Flow_lib.h</a>
+, <a class="el" href="_s_w___flow__lib_8c.html#a3a09cb656bc69c7373a2d01cb06b0700">SW_Flow_lib.c</a>
 </li>
 <li>RemoveFiles()
-: <a class="el" href="filefuncs_8c.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.c</a>
-, <a class="el" href="filefuncs_8h.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.h</a>
+: <a class="el" href="filefuncs_8h.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.h</a>
+, <a class="el" href="filefuncs_8c.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.c</a>
 </li>
 </ul>
 </div><!-- contents -->

diff --git a/doc/html/globals_g.html b/doc/html/globals_g.html
@@ -86,6 +86,9 @@ <h3><a id="index_g"></a>- g -</h3><ul>
 <li>GE
 : <a class="el" href="generic_8h.html#a14e32c27dc9b188856093ae003f78b5c">generic.h</a>
 </li>
+<li>genbet()
+: <a class="el" href="rands_8h.html#a7c113f4c25479e9dd7b60b2c382258fb">rands.h</a>
+</li>
 <li>GENERIC_H
 : <a class="el" href="generic_8h.html#a5863b1da36cc637653e94892978b74ad">generic.h</a>
 </li>
@@ -104,8 +107,8 @@ <h3><a id="index_g"></a>- g -</h3><ul>
 , <a class="el" href="_s_w___flow__lib_8c.html#a509909394ec87616d70b0f98ff790bb6">SW_Flow_lib.c</a>
 </li>
 <li>grass_intercepted_water()
-: <a class="el" href="_s_w___flow__lib_8h.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.h</a>
-, <a class="el" href="_s_w___flow__lib_8c.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.c</a>
+: <a class="el" href="_s_w___flow__lib_8c.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.c</a>
+, <a class="el" href="_s_w___flow__lib_8h.html#af96898fb97d62e17b02d0c6f719151ce">SW_Flow_lib.h</a>
 </li>
 <li>GT
 : <a class="el" href="generic_8h.html#a8df7ad109bbbe1c1278157e968aecc1d">generic.h</a>

diff --git a/doc/html/globals_r.html b/doc/html/globals_r.html
@@ -89,6 +89,9 @@ <h3><a id="index_r"></a>- r -</h3><ul>
 <li>RAND_FAST
 : <a class="el" href="rands_8h.html#ad66856cf13352818eefa117fb3376660">rands.h</a>
 </li>
+<li>RandBeta()
+: <a class="el" href="rands_8c.html#aeecd655ab3f03f24d50688e6776586b3">rands.c</a>
+</li>
 <li>RandListType
 : <a class="el" href="rands_8h.html#af3c4c74d79e1f731f27b6edb3d0f3a49">rands.h</a>
 </li>
@@ -100,8 +103,8 @@ <h3><a id="index_r"></a>- r -</h3><ul>
 : <a class="el" href="rands_8h.html#a264e95ffa78bb52b335b4ccce1228840">rands.h</a>
 </li>
 <li>RandSeed()
-: <a class="el" href="rands_8h.html#ad17d320703c92d263551310bab8aedb5">rands.h</a>
-, <a class="el" href="rands_8c.html#ad17d320703c92d263551310bab8aedb5">rands.c</a>
+: <a class="el" href="rands_8c.html#ad17d320703c92d263551310bab8aedb5">rands.c</a>
+, <a class="el" href="rands_8h.html#ad17d320703c92d263551310bab8aedb5">rands.h</a>
 </li>
 <li>RandUni
 : <a class="el" href="rands_8h.html#a1455ba7faeab85f64b601634591b83de">rands.h</a>
@@ -115,8 +118,8 @@ <h3><a id="index_r"></a>- r -</h3><ul>
 , <a class="el" href="rands_8h.html#a6b2c3e2421d50b10f64a632c56f3cdaa">rands.h</a>
 </li>
 <li>RandUniList()
-: <a class="el" href="rands_8h.html#ac710bab1ea1ca04eb37a4095cebe1450">rands.h</a>
-, <a class="el" href="rands_8c.html#a99ad06019a6dd764a7150a67d55dc30c">rands.c</a>
+: <a class="el" href="rands_8c.html#a99ad06019a6dd764a7150a67d55dc30c">rands.c</a>
+, <a class="el" href="rands_8h.html#ac710bab1ea1ca04eb37a4095cebe1450">rands.h</a>
 </li>
 <li>RandUniRange()
 : <a class="el" href="rands_8c.html#a5b70649d47341d10706e3a587294d589">rands.c</a>
@@ -133,8 +136,8 @@ <h3><a id="index_r"></a>- r -</h3><ul>
 , <a class="el" href="_s_w___flow__lib_8h.html#a719179c043543e75ab34fa0279be09d3">SW_Flow_lib.h</a>
 </li>
 <li>RemoveFiles()
-: <a class="el" href="filefuncs_8h.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.h</a>
-, <a class="el" href="filefuncs_8c.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.c</a>
+: <a class="el" href="filefuncs_8c.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.c</a>
+, <a class="el" href="filefuncs_8h.html#add5288726b3ae23ec6c69e3d59e09b00">filefuncs.h</a>
 </li>
 </ul>
 </div><!-- contents -->

diff --git a/doc/html/index.html b/doc/html/index.html
@@ -84,7 +84,12 @@
 <div class="title">SOILWAT2 Documentation</div>  </div>
 </div><!--header-->
 <div class="contents">
-<div class="textblock"><p><a href="https://travis-ci.org/Burke-Lauenroth-Lab/SOILWAT2"></a></p>
+<div class="textblock"><table class="doxtable">
+<tr>
+<th align="left">Unix </th><th align="left">Windows </th><th align="left">Release </th><th align="left">License </th><th align="left">Coverage </th><th align="left">Downloads  </th></tr>
+<tr>
+<td align="left"><a href="https://travis-ci.org/Burke-Lauenroth-Lab/SOILWAT2"></a> </td><td align="left"><a href="https://ci.appveyor.com/project/dschlaep/soilwat2/branch/master"></a> </td><td align="left"><a href="https://github.com/Burke-Lauenroth-Lab/SOILWAT2/releases"></a> </td><td align="left"><a href="https://www.gnu.org/licenses/gpl.html"></a> </td><td align="left"><a href="https://codecov.io/gh/Burke-Lauenroth-Lab/SOILWAT2"></a> </td><td align="left"><a href="https://github.com/Burke-Lauenroth-Lab/SOILWAT2"></a> </td></tr>
+</table>
 <h1>SOILWAT2</h1>
 <p>This version of SoilWat brings new features. This is the same code that is used by <a href="https://github.com/Burke-Lauenroth-Lab/rSOILWAT2">rSOILWAT2</a> and <a href="https://github.com/Burke-Lauenroth-Lab/STEPWAT2">STEPWAT2</a>.</p>
 <p>If you make use of this model, please cite appropriate references, and we would like to hear about your particular study (especially a copy of any published paper).</p>
@@ -94,20 +99,33 @@ <h1>SOILWAT2</h1>
 <li>Palmquist, K.A., Schlaepfer, D.R., Bradford, J.B., and Lauenroth, W.K. 2016. Mid-latitude shrub steppe plant communities: climate change consequences for soil water resources. Ecology 97:2342–2354.</li>
 <li>Schlaepfer, D. R., W. K. Lauenroth, and J. B. Bradford. 2012. Ecohydrological niche of sagebrush ecosystems. Ecohydrology 5:453-466.</li>
 </ul>
-<h2>For code contributors only</h2>
-<ul>
-<li>The files 'Makevars', '<a class="el" href="_s_w___r__lib_8c.html">SW_R_lib.c</a>' and '<a class="el" href="_s_w___r__lib_8h.html">SW_R_lib.h</a>' are used when compiling for <a href="https://github.com/Burke-Lauenroth-Lab/rSOILWAT2">rSOILWAT2</a> and ignored otherwise.</li>
-<li>The file '<a class="el" href="_s_w___main___function_8c.html">SW_Main_Function.c</a>' is used when compiling with <a href="https://github.com/Burke-Lauenroth-Lab/STEPWAT2">STEPWAT2</a> and ignored otherwise.</li>
-</ul>
-<h3>Version numbers</h3>
-<p>We attempt to follow guidelines of <a href="http://semver.org/">semantic versioning</a> with version numbers of MAJOR.MINOR.PATCH.</p>
-<h3>How to contribute</h3>
+<h2>How to contribute</h2>
 <p>You can help us in different ways:</p>
 <ol type="1">
 <li>Reporting <a href="https://github.com/Burke-Lauenroth-Lab/SOILWAT2/issues">issues</a></li>
 <li>Contributing code and sending a <a href="https://github.com/Burke-Lauenroth-Lab/SOILWAT2/pulls">pull request</a></li>
 </ol>
-<h1>Notes</h1>
+<p><b>SOILWAT2 code is used as part of three applications</b>: stand-alone, as part of <a href="https://github.com/Burke-Lauenroth-Lab/STEPWAT2">STEPWAT2</a>, and as part of the R package <a href="https://github.com/Burke-Lauenroth-Lab/rSOILWAT2">rSOILWAT2</a></p><ul>
+<li>The files 'Makevars', '<a class="el" href="_s_w___r__lib_8c.html">SW_R_lib.c</a>' and '<a class="el" href="_s_w___r__lib_8h.html">SW_R_lib.h</a>' are used when compiling for <a href="https://github.com/Burke-Lauenroth-Lab/rSOILWAT2">rSOILWAT2</a> and ignored otherwise.</li>
+<li>The file '<a class="el" href="_s_w___main___function_8c.html">SW_Main_Function.c</a>' is used when compiling with <a href="https://github.com/Burke-Lauenroth-Lab/STEPWAT2">STEPWAT2</a> and ignored otherwise.</li>
+</ul>
+<p><b>Follow our guidelines</b> as detailed <a href="https://github.com/Burke-Lauenroth-Lab/workflow_guidelines">here</a></p>
+<p><b>Tests, documentation, and code</b> form a trinity</p><ul>
+<li>Code documentation<ul>
+<li>Use <a href="http://www.stack.nl/~dimitri/doxygen/">doxygen</a> to write inline code documentation</li>
+<li>Update help pages on the command-line with <code>doxygen Doxyfile</code></li>
+</ul>
+</li>
+<li>Code tests<ul>
+<li>Use https://github.com/google/googletest/blob/master/googletest/docs/Documentation.md "GoogleTest" to add unit tests to the existing framework</li>
+<li>Run unit tests locally on the command-line with ``` make gtest ./sw_test make gtest_clean ```</li>
+<li>We plan to update the continuous integration frameworks 'travis' and 'appveyor' to run these tests as well when commits are pushed</li>
+<li>Development/feature branches can only be merged into master if they pass all checks</li>
+</ul>
+</li>
+</ul>
+<p><b>Version numbers</b></p>
+<p>We attempt to follow guidelines of <a href="http://semver.org/">semantic versioning</a> with version numbers of MAJOR.MINOR.PATCH.</p>
 <p><b>Repository renamed from SOILWAT to SOILWAT2 on Feb 23, 2017</b></p>
 <p>All existing information should <a href="https://help.github.com/articles/renaming-a-repository/">automatically be redirected</a> to the new name.</p>
 <p>Contributors are encouraged, however, to update local clones to <a href="https://help.github.com/articles/changing-a-remote-s-url/">point to the new URL</a>, i.e., </p><div class="fragment"><div class="line">git remote set-url origin https://github.com/Burke-Lauenroth-Lab/SOILWAT2.git</div></div><!-- fragment --> </div></div><!-- contents -->

diff --git a/doc/html/navtreedata.js b/doc/html/navtreedata.js
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diff --git a/doc/html/navtreeindex4.js b/doc/html/navtreeindex4.js
@@ -1,5 +1,7 @@
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