diff --git a/R/trans_abund.R b/R/trans_abund.R
index 6899d42..f9aa8c9 100644
--- a/R/trans_abund.R
+++ b/R/trans_abund.R
@@ -892,7 +892,7 @@ trans_abund <- R6Class(classname = "trans_abund",
 			}
 			invisible(self)
 		}
-		),
+	),
 	private = list(
 		adjust_axis_facet = function(plot_data, x_axis_name, order_x){
 			# order x axis samples and facet
diff --git a/R/trans_diff.R b/R/trans_diff.R
index fc37b31..942d5ef 100644
--- a/R/trans_diff.R
+++ b/R/trans_diff.R
@@ -1580,16 +1580,8 @@ trans_diff <- R6Class(classname = "trans_diff",
 			}
 			tree <- tree + theme(legend.position = "right", legend.title = element_blank())
 			tree
-		},
-		#' @description
-		#' Print the trans_alpha object.
-		print = function() {
-			cat("trans_diff object:\n")
-			cat(paste("res_diff have", ncol(self$res_diff), "columns: ", paste0(colnames(self$res_diff), collapse = ", "), "\n"))
-			if(!is.null(self$res_abund)) cat(paste("res_abund have", ncol(self$res_abund), "columns: ", paste0(colnames(self$res_abund), collapse = ", "), "\n"))
-			invisible(self)
 		}
-		),
+	),
 	private = list(
 		check_taxa_level_all = function(taxa_level){
 			if(taxa_level == "all"){
diff --git a/R/trans_env.R b/R/trans_env.R
index 3cb4936..c54f0c0 100644
--- a/R/trans_env.R
+++ b/R/trans_env.R
@@ -1468,6 +1468,7 @@ trans_env <- R6Class(classname = "trans_env",
 			}else{
 				cat("No environmental variable table stored in the object.\n")
 			}
+			invisible(self)
 		}
 	),
 	private = list(
diff --git a/R/trans_func.R b/R/trans_func.R
index ab2758f..50eeecf 100644
--- a/R/trans_func.R
+++ b/R/trans_func.R
@@ -835,24 +835,6 @@ trans_func <- R6Class(classname = "trans_func",
 			self$res_tax4fun2_rFRI <- rel_functional_redundancy_final
 			message('Relative functional redundancy is stored in object$res_tax4fun2_rFRI')
 			invisible(self)
-		},
-		#' @description
-		#' Print the trans_func object.
-		print = function(){
-			cat("trans_func object:\n")
-			cat(paste("Functional analysis for", self$for_what, ".\n"))
-			if(!is.null(self$sample_table)){
-				cat("sample_table is available.\n")
-			}
-			if(!is.null(self$otu_table)){
-				cat("otu_table is available.\n")
-			}
-			if(!is.null(self$tax_table)){
-				cat("tax_table is available.\n")
-			}
-			if(!is.null(self$rep_fasta)){
-				cat("rep_fasta is available.\n")
-			}
 		}
 	),
 	active = list(
diff --git a/R/trans_network.R b/R/trans_network.R
index e15c883..a99ab53 100644
--- a/R/trans_network.R
+++ b/R/trans_network.R
@@ -1251,7 +1251,7 @@ trans_network <- R6Class(classname = "trans_network",
 			}
 			invisible(self)
 		}
-		),
+	),
 	private = list(
 		check_filter_number = function(input, param = "filter_thres"){
 			if(nrow(input) == 0){
diff --git a/R/trans_venn.R b/R/trans_venn.R
index 90795da..4106301 100644
--- a/R/trans_venn.R
+++ b/R/trans_venn.R
@@ -542,8 +542,9 @@ trans_venn <- R6Class(classname = "trans_venn",
 		#' Print the trans_venn object.
 		print = function() {
 			print(self$data_summary)
+			invisible(self)
 		}
-		),
+	),
 	private = list(
 		# modified from vennSets function in systemPipeR package
 		vennSets = function(setmatrix, allcombl, index, setunion){
diff --git a/man/trans_diff.Rd b/man/trans_diff.Rd
index 79591a9..42cbd97 100644
--- a/man/trans_diff.Rd
+++ b/man/trans_diff.Rd
@@ -68,7 +68,6 @@ t1$plot_diff_cladogram(use_taxa_num = 100, use_feature_num = 30, select_show_lab
 \item \href{#method-trans_diff-plot_diff_abund}{\code{trans_diff$plot_diff_abund()}}
 \item \href{#method-trans_diff-plot_diff_bar}{\code{trans_diff$plot_diff_bar()}}
 \item \href{#method-trans_diff-plot_diff_cladogram}{\code{trans_diff$plot_diff_cladogram()}}
-\item \href{#method-trans_diff-print}{\code{trans_diff$print()}}
 \item \href{#method-trans_diff-clone}{\code{trans_diff$clone()}}
 }
 }
@@ -563,16 +562,6 @@ t1$plot_diff_cladogram(use_taxa_num = 100, use_feature_num = 30, select_show_lab
 
 }
 
-}
-\if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-trans_diff-print"></a>}}
-\if{latex}{\out{\hypertarget{method-trans_diff-print}{}}}
-\subsection{Method \code{print()}}{
-Print the trans_alpha object.
-\subsection{Usage}{
-\if{html}{\out{<div class="r">}}\preformatted{trans_diff$print()}\if{html}{\out{</div>}}
-}
-
 }
 \if{html}{\out{<hr>}}
 \if{html}{\out{<a id="method-trans_diff-clone"></a>}}
diff --git a/man/trans_func.Rd b/man/trans_func.Rd
index 0becc82..f52bc0e 100644
--- a/man/trans_func.Rd
+++ b/man/trans_func.Rd
@@ -93,7 +93,6 @@ t1$cal_tax4fun2_FRI()
 \item \href{#method-trans_func-plot_spe_func_perc}{\code{trans_func$plot_spe_func_perc()}}
 \item \href{#method-trans_func-cal_tax4fun2}{\code{trans_func$cal_tax4fun2()}}
 \item \href{#method-trans_func-cal_tax4fun2_FRI}{\code{trans_func$cal_tax4fun2_FRI()}}
-\item \href{#method-trans_func-print}{\code{trans_func$print()}}
 \item \href{#method-trans_func-clone}{\code{trans_func$clone()}}
 }
 }
@@ -416,16 +415,6 @@ t1$cal_tax4fun2_FRI()
 
 }
 
-}
-\if{html}{\out{<hr>}}
-\if{html}{\out{<a id="method-trans_func-print"></a>}}
-\if{latex}{\out{\hypertarget{method-trans_func-print}{}}}
-\subsection{Method \code{print()}}{
-Print the trans_func object.
-\subsection{Usage}{
-\if{html}{\out{<div class="r">}}\preformatted{trans_func$print()}\if{html}{\out{</div>}}
-}
-
 }
 \if{html}{\out{<hr>}}
 \if{html}{\out{<a id="method-trans_func-clone"></a>}}