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No it is not normal. There might be a problem with the input files.
YOU ARE USING ACTUALLY AN OLD VERSION OF THE SOFTWARE.
You should rather use: https://github.com/ucagenomix/sicelore-2.1
It is far more efficient since it does not require Illumina sequencing data and you get far more reads assigned to barcodes.
when I using the NanoporeBC_UMI_finder-1.0.jar in step 5,it gaves a lot of the output looks like this
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : c2aa2882-31f3-4e2e-bba3-360322a77edd_FWD_pA_Ad3p failed
java.lang.NullPointerException: null
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : dfcf0508-e986-44ce-b9ea-ec17096121cc_FWD_pA_Ad3p failed
java.lang.NullPointerException: null
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : 31400bf2-9221-4f5e-aa4b-d872e0c72c02_FWD_pA_Ad3p failed
java.lang.NullPointerException: null
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : aaaeacfb-6bfd-4ac9-a23c-c8d681500f22_FWD_pA_Ad3p_TSO5p failed
java.lang.NullPointerException: null
2024-03-30 17:10:38 DEBUG NanoPoreSeqAnalyzer_new:201 - Read : 813e3d8b-a5c3-429a-9121-67c9e4c7ca75_FWD_pA_Ad3p failed
java.lang.NullPointerException: null
Is this situation normal?
Thanks !
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