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Check for empty lines in HPF #31

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merged 2 commits into from
Jan 4, 2024
Merged

Check for empty lines in HPF #31

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ae17a91
Check for empty lines in hpf generation
pbashyal-nmdp Jan 4, 2024
490076c
Merge branch 'master' of https://github.com/nmdp-bioinformatics/py-gr…
pbashyal-nmdp Jan 4, 2024
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2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -93,7 +93,7 @@ This will produce the following files:
#### Produce Imputation Results for Subjects

```
>>> from grim.grim import graph_freqs, impute
>>> from grim.grim import impute
>>> impute(conf_file='conf/minimal-configuration.json')
****************************************************************************************************
Performing imputation based on:
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55 changes: 0 additions & 55 deletions conf/minimal-configuration-script.json
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2 changes: 2 additions & 0 deletions graph_generation/generate_neo4j_multi_hpf.py
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Expand Up @@ -318,6 +318,8 @@ def generate_graph(
num_of_alleles = len(FULL_LOCI)
with open(freq_file) as f:
for hap_line in f:
if not hap_line:
continue
haplotype, pop, freq = hap_line.split(",")
if haplotype == "hap":
continue
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