Update of obipcr and homogenization of logging

Former-commit-id: 46abf47c19ace5248042c02cf1f81d9f6c12eb10

pkg/obiiter/limitmemory.go

@@ -0,0 +1,47 @@
+package obiiter
+
+import (
+	"runtime"
+
+	"github.com/pbnjay/memory"
+	log "github.com/sirupsen/logrus"
+)
+
+func (iterator IBioSequence) LimitMemory(fraction float64) IBioSequence {
+	newIter := MakeIBioSequence()
+
+	fracLoad := func() float64 {
+		var mem runtime.MemStats
+		runtime.ReadMemStats(&mem)
+		return float64(mem.Alloc) / float64(memory.TotalMemory())
+	}
+
+	newIter.Add(1)
+	go func() {
+
+		for iterator.Next() {
+			nwait := 0
+			for fracLoad() > fraction {
+				runtime.Gosched()
+				nwait++
+				if nwait%1000 == 0 {
+					log.Warnf("Wait for memory limit %f/%f", fracLoad(), fraction)
+
+				}
+				if nwait > 10000 {
+					log.Warnf("Very long wait for memory limit %f/%f", fracLoad(), fraction)
+					break
+				}
+			}
+			newIter.Push(iterator.Get())
+		}
+
+		newIter.Done()
+	}()
+
+	go func() {
+		newIter.WaitAndClose()
+	}()
+
+	return newIter
+}