Class picard.illumina.CheckIlluminaDirectoryTest

all > picard.illumina > CheckIlluminaDirectoryTest
14

tests
0

failures
0

ignored
0.894s

duration
100%

successful

Tests

Test Duration Result
basedirDoesntExistTest 0.011s passed
cbclWithSkipsInReadStructureTest 0.248s passed
differentSizedBclTest 0.042s passed
negativeTests[0]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@a1a6632, [Lpicard.illumina.parser.IlluminaDataType;@8f8c4ad, [], [], 2, [1101, 1201, 1301, 2101, 2201, 2301], [I@592a729f, 68T8B68T, 2, [], true) 0.103s passed
negativeTests[1]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@60a0075c, [Lpicard.illumina.parser.IlluminaDataType;@1fb00eff, [BaseCalls/L002/C13.1/s_2_1201.bcl, BaseCalls/L002/C13.1/s_2_2101.bcl], [BaseCalls/L002/s_2_2101.filter], 2, [1101, 1201, 1301, 2101, 2201, 2301], [I@6e0ed05c, 13T, 3, [], true) 0.035s passed
negativeTests[2]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@5f0c0ef5, [Lpicard.illumina.parser.IlluminaDataType;@3a400ce6, [], [], 5, [1101, 1201, 1301, 2101, 2201, 2301], [I@3ed09d54, 250T, 98, [], true) 0.090s passed
negativeTests[3]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@16c221e4, [Lpicard.illumina.parser.IlluminaDataType;@2d1eadd7, [], [], 5, [1101, 1201, 1301, 2101, 2201, 2301], [I@1d70dc00, 250T, 98, [1301, 2201], true) 0.081s passed
noSymlinkLocsTest 0.064s passed
positiveTests[0]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@306342f0, [Lpicard.illumina.parser.IlluminaDataType;@415ddc83, 3, [1101, 1201, 1301, 2101, 2201, 2301], [I@319b4b36, 25T25T, []) 0.022s passed
positiveTests[1]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@55d42164, [Lpicard.illumina.parser.IlluminaDataType;@641c90b3, 2, [1101, 1201, 1301, 2101, 2201, 2301], [I@664f8ff6, 8S15T8S, []) 0.022s passed
positiveTests[2]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@4841c5e8, [Lpicard.illumina.parser.IlluminaDataType;@3c726515, 2, [1101, 1201, 1301, 2101, 2201, 2301], [I@1b4ad6be, 68T8B68T, []) 0.046s passed
positiveTests[3]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@270066a5, [Lpicard.illumina.parser.IlluminaDataType;@aca3507, 5, [1101, 1201, 1301, 2101, 2201, 2301], [I@44981eb4, 25T25T, []) 0.022s passed
positiveTests[4]([Lpicard.illumina.parser.IlluminaFileUtil$SupportedIlluminaFormat;@3d7b61ed, [Lpicard.illumina.parser.IlluminaDataType;@69dc5c20, 5, [1101, 1201, 1301, 2101, 2201, 2301], [I@1a639e3f, 25T25T, [1301, 2101]) 0.020s passed
symlinkLocsTest 0.088s passed

Standard error

[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR testdata/picard/illumina/151T8B8B151T_cbcl/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --READ_STRUCTURE 1S1T --LANES 1 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(1 in basecalls directory (/mounts/lovelace/software/picard/picard/testdata/picard/illumina/151T8B8B151T_cbcl/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 2
INFO	2025-04-24 13:00:34	CbclReader	Processing tile 1101
INFO	2025-04-24 13:00:34	CbclReader	Processing tile 1102
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir8351270978220022807/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --READ_STRUCTURE 50T --LANES 5 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir8351270978220022807/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1, 2, 3, 4
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	File type .bcl has cycles files of different length.  Current cycle (9) Length of first non-empty file (14) length of current cycle (56487) File(/tmp/ift_test.IlluminaDir8351270978220022807/Data/Intensities/BaseCalls/L005/C9.1/s_5_3.bcl)
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 FAILED  Total Errors: 1
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	FAILED! There were 1 in the following lanes: 5
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir888657627182834919/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --DATA_TYPES Barcodes --READ_STRUCTURE 68T8B68T --LANES 2 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir888657627182834919/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Faking files for Position
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Faking files for Barcodes
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Could not find a format with available files for the following data types: Position, Barcodes
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 2 FAILED  Total Errors: 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	FAILED! There were 2 in the following lanes: 2
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir888657627182834919/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --DATA_TYPES Barcodes --READ_STRUCTURE 68T8B68T --LANES 2 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir888657627182834919/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 2 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir1070970048041473772/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 13T --LANES 2 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir1070970048041473772/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	File type .bcl is missing a file for cycle 13 and tile 1201
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	File type .bcl is missing a file for cycle 13 and tile 2101
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing tile [2101] for file type .filter.
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 2 FAILED  Total Errors: 3
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	FAILED! There were 3 in the following lanes: 2
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir1070970048041473772/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 13T --LANES 2 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir1070970048041473772/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 2 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 250T --LANES 5 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 153 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 154 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 155 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 156 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 157 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 158 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 159 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 160 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 161 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 162 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 163 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 164 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 165 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 166 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 167 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 168 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 169 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 170 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 171 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 172 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 173 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 174 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 175 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 176 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 177 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 178 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 179 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 180 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 181 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 182 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 183 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 184 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 185 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 186 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 187 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 188 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 189 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 190 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 191 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 192 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 193 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 194 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 195 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 196 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 197 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 198 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 199 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 200 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 201 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 202 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 203 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 204 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 205 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 206 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 207 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 208 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 209 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 210 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 211 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 212 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 213 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 214 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 215 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 216 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 217 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 218 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 219 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 220 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 221 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 222 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 223 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 224 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 225 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 226 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 227 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 228 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 229 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 230 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 231 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 232 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 233 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 234 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 235 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 236 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 237 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 238 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 239 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 240 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 241 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 242 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 243 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 244 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 245 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 246 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 247 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 248 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 249 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 250 in directory /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 FAILED  Total Errors: 98
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	FAILED! There were 98 in the following lanes: 5
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 250T --LANES 5 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir14406243588215984666/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 250T --LANES 5 --TILE_NUMBERS 1301 --TILE_NUMBERS 2201 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1301, 2201
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 153 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 154 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 155 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 156 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 157 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 158 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 159 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 160 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 161 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 162 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 163 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 164 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 165 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 166 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 167 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 168 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 169 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 170 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 171 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 172 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 173 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 174 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 175 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 176 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 177 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 178 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 179 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 180 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 181 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 182 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 183 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 184 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 185 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 186 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 187 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 188 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 189 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 190 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 191 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 192 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 193 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 194 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 195 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 196 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 197 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 198 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 199 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 200 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 201 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 202 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 203 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 204 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 205 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 206 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 207 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 208 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 209 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 210 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 211 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 212 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 213 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 214 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 215 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 216 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 217 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 218 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 219 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 220 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 221 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 222 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 223 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 224 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 225 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 226 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 227 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 228 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 229 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 230 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 231 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 232 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 233 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 234 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 235 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 236 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 237 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 238 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 239 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 240 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 241 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 242 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 243 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 244 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 245 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 246 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 247 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 248 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 249 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Missing file for cycle 250 in directory /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls/L005 for file type .bcl
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 FAILED  Total Errors: 98
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	FAILED! There were 98 in the following lanes: 5
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 250T --LANES 5 --TILE_NUMBERS 1301 --TILE_NUMBERS 2201 --FAKE_FILES true --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir875133394267489305/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 215, 216, 217, 218, 219, 220, 221, 222, 223, 224, 225, 226, 227, 228, 229, 230, 231, 232, 233, 234, 235, 236, 237, 238, 239, 240, 241, 242, 243, 244, 245, 246, 247, 248, 249, 250
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1301, 2201
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir15251630604032570970/Data/Intensities/BaseCalls --DATA_TYPES Position --READ_STRUCTURE 50T --LANES 5 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir15251630604032570970/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1102, 1103, 2101, 2102, 2103
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir15251630604032570970/Data/Intensities/BaseCalls --DATA_TYPES Position --READ_STRUCTURE 50T --LANES 5 --FAKE_FILES false --LINK_LOCS true --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir15251630604032570970/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1102, 1103, 2101, 2102, 2103
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir1199789105759489644/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 25T25T --LANES 3 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(3 in basecalls directory (/tmp/ift_test.IlluminaDir1199789105759489644/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 3
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 3 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir5629766445626163770/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 8S15T8S --LANES 2 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir5629766445626163770/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Lane 2 SUCCEEDED 
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:34 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:34 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir4180477798609743012/Data/Intensities/BaseCalls --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 68T8B68T --LANES 2 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:34 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lanes(2 in basecalls directory (/tmp/ift_test.IlluminaDir4180477798609743012/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Checking lane 2
INFO	2025-04-24 13:00:34	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Lane 2 SUCCEEDED 
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:35 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:35 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir9045294646157910271/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 25T25T --LANES 5 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:35 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir9045294646157910271/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected tiles: 1101, 1201, 1301, 2101, 2201, 2301
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:35 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:35 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir12087909876592439321/Data/Intensities/BaseCalls --DATA_TYPES Position --DATA_TYPES BaseCalls --DATA_TYPES QualityScores --DATA_TYPES PF --READ_STRUCTURE 25T25T --LANES 5 --TILE_NUMBERS 1301 --TILE_NUMBERS 2101 --FAKE_FILES false --LINK_LOCS false --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:35 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir12087909876592439321/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected tiles: 1301, 2101
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:35 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:35 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir3215709242440323167/Data/Intensities/BaseCalls --DATA_TYPES Position --READ_STRUCTURE 50T --LANES 5 --FAKE_FILES false --LINK_LOCS true --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:35 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir3215709242440323167/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected tiles: 1101, 1102, 1103, 2101, 2102, 2103
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:35 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:35 EDT 2025] CheckIlluminaDirectory --BASECALLS_DIR /tmp/ift_test.IlluminaDir3215709242440323167/Data/Intensities/BaseCalls --DATA_TYPES Position --READ_STRUCTURE 50T --LANES 5 --FAKE_FILES false --LINK_LOCS true --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:35 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lanes(5 in basecalls directory (/tmp/ift_test.IlluminaDir3215709242440323167/Data/Intensities/BaseCalls)

INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected cycles: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Checking lane 5
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Expected tiles: 1101, 1102, 1103, 2101, 2102, 2103
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	Lane 5 SUCCEEDED 
INFO	2025-04-24 13:00:35	CheckIlluminaDirectory	SUCCEEDED!  All required files are present and non-empty.
[Thu Apr 24 13:00:35 EDT 2025] picard.illumina.CheckIlluminaDirectory done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824