python3 /PROGS/EXTERN/AnnotSV/AnnotSV_dev/share/python3/variantconvert//src/variantconvert convert -i /PROGS/EXTERN/AnnotSV/AnnotSV_dev/share/doc/AnnotSV/Example/test2.annotated.tsv -o /PROGS/EXTERN/AnnotSV/AnnotSV_dev/share/doc/AnnotSV/Example/test2.annotated.vcf -c /PROGS/EXTERN/AnnotSV/AnnotSV_dev/share/python3/variantconvert//src/variantconvert/configs/GRCh37/annotsv3_from_vcf.combined.local.json

2025-07-15 14:44:54 [INFO] running variantconvert 2.0.1
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[240.0 240.0 -84420.0 -84420.0 '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[1.0 '.' 1.0 '.' 2.0 '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 2.0 '.' 3.0 '.' 1.0 3.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 14026682.0 '.' 109745660.0 '.' 80243511.0 80256181.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 14151574.0 '.' 110262211.0 '.' 80256726.0 80525981.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 241.0 '.' 84421.0 '.' 4828.0 5718.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 0.0 '.' 0.0 '.' 0.0 288.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 0.0 '.' 0.0 '.' 0.0 7.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 8.0 '.' 10.0 '.' 4.0 27.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 32521.0 '.' 31011.0 '.' 4599.0 5054.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 14110159.0 '.' 110138403.0 '.' 80251898.0 80256181.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 14110400.0 '.' 110222824.0 '.' 80256726.0 80261899.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[40.49 40.49 65.25 65.25 32.53 '.' 32.53]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.415153458557427 0.415153458557427 '.' '.' 1.25977458409673 '.'
 1.25977458409673]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.373434796722033 0.373434796722033 '.' '.' 0.206923040395808 '.'
 0.206923040395808]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.547664002453622 0.547664002453622 '.' '.' 0.647601778097669 '.'
 0.647601778097669]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[-1.78317179376506 -1.78317179376506 -0.881765523739939 -0.881765523739939
 0.973590350721445 '.' 0.973590350721445]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.436072998472952 0.436072998472952 0.150060065037892 0.150060065037892
 3.58412504045464 '.' 3.58412504045464]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' 7799.0 '.' 344558.0 '.' 102524628.0 5924.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '['.' '.' '.' '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.0 0.0 2.0 2.0 1.0 '.' 1.0]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.99996 0.99996 0.028368 0.028368 0.15243 '.' 0.15243]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.99504 0.99504 0.9811 0.9811 0.99874 '.' 0.99874]' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
/PROGS/EXTERN/AnnotSV/AnnotSV_3.4.4/share/python3/variantconvert/src/variantconvert/converters/vcf_from_annotsv.py:59: FutureWarning: Setting an item of incompatible dtype is deprecated and will raise in a future error of pandas. Value '[0.0 '.' 0.0 '.' '.' '.' '.']' has dtype incompatible with float64, please explicitly cast to a compatible dtype first.
  df.loc[:, df.columns != sample_col] = df.loc[:, df.columns != sample_col].fillna(".")
2025-07-15 14:44:54 [INFO] variantconvert finished.
