def __init__(self, r, debug=False):
self.B = shelve.open('B.txt') # B contains the parents of the pebble.
self.all_graphs = shelve.open(
'all_graphs.txt', writeback=True
) # all_graphs contains the parents of every single ptc graph up to size r.
self.pebble_value = shelve.open(
'pebble_value.txt'
) # pebble_value stores the value of the hash associated with the pebble.
self.num_pebbles = 0 # num_pebbles is the number of pebbles currently on the graph.
self.max_pebbles = 0 # max_pebbles it the maximum number of pebbles that have been on the graph since the last reset.
self.graph_num = r
ptc.PTC(r, self.all_graphs)
for i in range(self.size()):
self.B[str(i)] = self.all_graphs[str(self.graph_num)][i]
for i in range(self.size()):
self.pebble_value[str(i)] = None
self.debug = debug
def create_butterfly_graphs(
n): # creates all butterfly PTC graphs up to and including n.
print "***************"
print "Running create_butterfly_graphs(" + str(
n) + "), starting at " + str(datetime.datetime.now()) + "."
start_generate = time.time()
all_graphs = open('all_graphs.txt', 'r+')
ptc.PTC(n, all_graphs)
end_generate = time.time()
print "Vertices in created graph: " + str(ptc.ptcsize(n))
print "Total seconds elapsed: " + str(end_generate - start_generate)
print "Vertices generated per second: " + str(
ptc.ptcsize(n) / (end_generate - start_generate))
print "create_butterfly_graphs(" + str(n) + ") completed at " + str(
datetime.datetime.now()) + "."
print "***************"
all_graphs.close()
def __init__(self, r, pre_generated_graph=False, debug=False):
# set pre_generated_graph to be True if the file all_graphs already contains all the neccessary parents on your computer.
self.hash_length = utils.hash_length()
self.all_graphs = open('all_graphs.txt', 'r+')
self.pebble_value = open('pebble_value.txt', 'r+')
self.num_pebbles = 0 # num_pebbles is the number of pebbles currently on the graph.
self.max_pebbles = 0 # max_pebbles it the maximum number of pebbles that have been on the graph since the last reset.
self.graph_num = r
self.size = ptc.ptcsize(self.graph_num)
if not pre_generated_graph:
self.all_graphs.seek(0)
ptc.PTC(r, self.all_graphs)
self.all_graphs_increment = len(str(self.size)) # The number of bytes each parent in all_graphs takes
self.all_graphs_start = ptc.all_graphs_start(self.graph_num) # The position where the rth graph is stored in all_graphs.
self.all_graphs.seek(self.all_graphs_start + 2 * 2**self.graph_num * self.all_graphs_increment)
self.pebble_value.seek(0)
for i in range(self.size):
self.pebble_value.write("z"*self.hash_length)
self.pebble_value.seek(0)
self.debug = debug
import ptc
import time
import logging
p = ptc.PTC()
logging.info("PTC Version=%s", p.version())
logging.info("Status=%s", p.getstatus())
logging.info("Lid status=%s", p.getlidstatus())
import ptc
import sys
import string
import logging
if len(sys.argv) != 5 or (sys.argv[2] != "BLOCK" and sys.argv[2] != "PROBE"
and sys.argv[2] != "CALC"):
print "Usage: %s PGM (BLOCK|PROBE|CALC) (TRACKING,xx|CONSTANT,xx|OFF) volume" % sys.argv[
0]
exit(1)
p = ptc.PTC(5)
p.setdebug()
if sys.argv[3] == "OFF":
hl = "OFF"
else:
ss = string.split(sys.argv[3], ',')
if len(ss) != 2 or (ss[0] != "TRACKING" and ss[0] != "CONSTANT"):
logging.error("Bad lid setting: %s" % sys.argv[3])
exit(1)
res = p.execute('HOTLID "%s",%s,25' % (ss[0], ss[1]))
hl = "ON"
res = p.execute('VESSEL "Plate"')
res = p.execute("VOLUME %s" % sys.argv[4])
res = p.execute('RUN "%s",%s,%s' % (sys.argv[1], sys.argv[2], hl))
status = p.getstatus()
if (status.bsr & status.RUNNING) == 0:
logging.error("Failed to start program %s: status=%s" %
(sys.argv[1], str(status)))
# Setup TRP programs on PTC
import ptc
import sys
p = ptc.PTC() # 10s timeout
p.setdebug()
p.execute('FOLDER "TRP"')
p.program('TRP', sys.argv[1], [s.replace('@', ' ') for s in sys.argv[2:]])
pgms = p.programs("TRP")
print "pgms=", pgms
# Get status of the various parts of the thermocycler and store in Gemini using named pipes interface
import ptc
import sys
if len(sys.argv) < 2:
print "Usage: ptcclean.py FOLDER [ FOLDER ... ]"
exit(2)
p = ptc.PTC(10) # 10s timeout
folders = sys.argv[1:]
for folder in folders:
print "Scanning folder %s..." % folder
pgms = p.programs(folder)
print "pgms=", pgms
for pgm in pgms:
print "Erasing %s/%s: " % (folder, pgm),
sys.stdout.flush()
res = p.erase(pgm)
print res
if res != "PGM DELETED":
print "Error deleting %s/%s: %s" % (folder, pgm, res)
res = p.execute('DELFOLDER "%s"' % folder)
print "Deleting folder %s: %s" % (folder, res)
exit(0)
