Found 26 alignment reports in current directory. Now trying to figure out whether there are corresponding optional reports Writing Bismark HTML report to >> 1_ATCACG_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 1_ATCACG_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 1_ATCACG_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 1_ATCACG_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 2_CGATGT_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 2_CGATGT_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 2_CGATGT_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 2_CGATGT_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 3_TTAGGC_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 4_TGACCA_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 4_TGACCA_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 4_TGACCA_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 4_TGACCA_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 5_ACAGTG_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 6_GCCAAT_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 7_CAGATC_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 7_CAGATC_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 7_CAGATC_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 7_CAGATC_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2_SE_report.txt < Processing alignment report 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report 8_ACTTGA_L001_R1_001_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_10_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_10_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_10_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_10_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_10_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_10_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_10_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_10_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_10_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_11_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_11_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_11_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_11_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_11_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_11_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_11_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_11_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_11_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_12_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_12_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_12_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_12_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_12_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_12_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_12_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_12_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_12_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_13_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_13_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_13_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_13_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_13_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_13_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_13_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_13_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_13_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_14_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_14_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_14_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_14_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_14_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_14_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_14_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_14_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_14_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_15_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_15_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_15_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_15_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_15_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_15_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_15_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_15_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_15_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_16_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_16_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_16_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_16_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_16_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_16_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_16_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_16_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_16_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_17_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_17_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_17_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_17_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_17_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_17_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_17_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_17_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_17_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_18_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_18_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_18_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_18_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_18_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_18_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_18_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_18_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_18_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_1_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_1_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_1_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_1_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_1_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_1_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_1_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_1_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_1_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_2_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_2_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_2_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_2_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_2_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_2_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_2_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_2_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_2_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_3_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_3_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_3_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_3_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_3_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_3_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_3_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_3_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_3_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_4_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_4_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_4_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_4_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_4_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_4_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_4_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_4_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_4_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_5_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_5_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_5_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_5_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_5_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_5_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_5_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_5_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_5_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_6_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_6_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_6_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_6_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_6_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_6_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_6_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_6_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_6_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_7_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_7_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_7_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_7_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_7_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_7_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_7_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_7_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_7_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_8_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_8_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_8_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_8_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_8_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_8_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_8_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_8_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_8_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ============================================================================================================== Writing Bismark HTML report to >> zr1394_9_s456_trimmed_bismark_bt2_SE_report.html << Redundant argument in sprintf at /home/shared/Bismark-0.19.1/bismark2report line 130. ============================================================================================================== Using the following alignment report: > zr1394_9_s456_trimmed_bismark_bt2_SE_report.txt < Processing alignment report zr1394_9_s456_trimmed_bismark_bt2_SE_report.txt ... Complete Using the following deduplication report: > zr1394_9_s456_trimmed_bismark_bt2.deduplication_report.txt < Processing deduplication report zr1394_9_s456_trimmed_bismark_bt2.deduplication_report.txt ... Complete Using the following splitting report: > zr1394_9_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt < Processing splitting report zr1394_9_s456_trimmed_bismark_bt2.deduplicated_splitting_report.txt ... Complete Using the following M-bias report: > zr1394_9_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt < Processing M-bias report zr1394_9_s456_trimmed_bismark_bt2.deduplicated.M-bias.txt ... Complete No nucleotide coverage report file specified, skipping this step ==============================================================================================================