@@ -1,5 +1,5 @@

 Package: CoGAPS

-Version: 3.3.7

+Version: 3.3.8

 Date: 2018-04-24

 Title: Coordinated Gene Activity in Pattern Sets

 Author: Thomas Sherman, Wai-shing Lee, Conor Kelton, Ondrej Maxian, Jacob Carey,

@@ -1,4 +1,4 @@

-# CoGAPS Version: 3.3.7

+# CoGAPS Version: 3.3.8

 [![Bioc](https://bioconductor.org/images/logo_bioconductor.gif)](https://bioconductor.org/packages/CoGAPS)

 [![downloads](https://bioconductor.org/shields/downloads/CancerInSilico.svg)](https://bioconductor.org/packages/CoGAPS)

@@ -122,6 +122,8 @@ void GapsRunner::runOnePhase()

 {

     for (; mCurrentIteration < mMaxIterations; ++mCurrentIteration)

     {

+        createCheckpoint();

+

         #ifdef __GAPS_R_BUILD__

         Rcpp::checkUserInterrupt();

         #endif

@@ -145,7 +147,6 @@ void GapsRunner::runOnePhase()

         }

         displayStatus();

-        createCheckpoint();

     }

 }

@@ -244,12 +245,10 @@ void GapsRunner::createCheckpoint()

         // create checkpoint file

         Archive ar(mCheckpointOutFile, ARCHIVE_WRITE);

-        

         gaps::random::save(ar);

         ar << mNumPatterns << mSeed << mASampler << mPSampler << mStatistics

             << mFixedMatrix << mMaxIterations << mPhase << mCurrentIteration

             << mNumUpdatesA << mNumUpdatesP;

-

         ar.close();

         // delete backup file

@@ -9,5 +9,4 @@ test_that("Checkpoint System",

     expect_true(all.equal(run1@featureLoadings, run2@featureLoadings))

     expect_true(all.equal(run1@sampleFactors, run2@sampleFactors))

-

 })

\ No newline at end of file