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float to int catching #10

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float to int catching #10

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6 changes: 3 additions & 3 deletions STARCH.py
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Original file line number Diff line number Diff line change
Expand Up @@ -456,7 +456,7 @@ def init_params(self,d=1.3,nthreads=1):
diff = np.mean(diffs)
logger.info(str(diff))

pool = mp.Pool(nthreads)
pool = mp.Pool(int(nthreads))
results = pool.map(partial(init_helper, data=self.data, n_clusters=self.n_clusters,normal=self.normal,diff=diff,labels=self.labels,c=c), [x for x in range(self.data.shape[0])])
for i in range(len(results)):
labels[i,:] = results[i]
Expand Down Expand Up @@ -568,7 +568,7 @@ def HMM_estimate_states_parallel(self,t,maxiters=100,deltoamp=0,nthreads=1):
for chrom in set(chromosomes):
for k in range(self.n_clusters):
inds.append([np.asarray([i for i in range(len(chromosomes)) if chromosomes[i] == chrom]),np.asarray([i for i in range(len(self.labels)) if self.labels[i]==k]),k])
pool = mp.Pool(nthreads)
pool = mp.Pool(int(nthreads))
results = pool.map(partial(HMM_helper, data=self.data, means = self.means, sigmas = self.sigmas,t = self.t,num_states = self.num_states,model=self.model,normal=self.normal), inds)
score = 0
for i in range(len(results)):
Expand Down Expand Up @@ -612,7 +612,7 @@ def MAP_estimate_labels(self,beta_spots,nthreads,maxiters=20):
inds_spot.append(np.where(self.spot_network[j,:] >= .25)[0])
tmp_spot.append(self.spot_network[j,inds_spot[j]])
logger.debug(str(tmp_spot))
pool = mp.Pool(nthreads)
pool = mp.Pool(int(nthreads))
norms = [norm(self.means[0][0],np.sqrt(self.sigmas[0][0])),norm(self.means[1][0],np.sqrt(self.sigmas[1][0])),norm(self.means[2][0],np.sqrt(self.sigmas[2][0]))]
for m in range(maxiters):
posteriors = 0
Expand Down
2 changes: 1 addition & 1 deletion run_STARCH.py
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Original file line number Diff line number Diff line change
Expand Up @@ -19,7 +19,7 @@
parser.add_argument('-p','--platform',required=False,type=str,choices=["ST", "Visium"],default='ST',help='platform for spatial transcriptomcis data')
args = parser.parse_args()

nthreads = args.threads
nthreads = int(args.threads)
beta_spot = args.beta_spot
n_clusters = args.n_clusters
returnnormal = args.returnnormal
Expand Down