How to compile, upload and monitor via the Linux command line?

I would suggest Googling for Makefile projects. I did one a while back for the Blink program, by basically seeing what got generated by the IDE and replicating that in a more general way.

#
# Simple Arduino Makefile
#
# Author: Nick Gammon
# Date: 18th March 2015

# where you installed the Arduino app
ARDUINO_DIR = C:/Documents and Settings/Nick/Desktop/arduino-1.0.6/

# various programs
CC = "$(ARDUINO_DIR)hardware/tools/avr/bin/avr-gcc"
CPP = "$(ARDUINO_DIR)hardware/tools/avr/bin/avr-g++"
AR = "$(ARDUINO_DIR)hardware/tools/avr/bin/avr-ar"
OBJ_COPY = "$(ARDUINO_DIR)hardware/tools/avr/bin/avr-objcopy"

MAIN_SKETCH = Blink.cpp

# compile flags for g++ and gcc

# may need to change these
F_CPU = 16000000
MCU = atmega328p

# compile flags
GENERAL_FLAGS = -c -g -Os -Wall -ffunction-sections -fdata-sections -mmcu=$(MCU) -DF_CPU=$(F_CPU)L -MMD -DUSB_VID=null -DUSB_PID=null -DARDUINO=106
CPP_FLAGS = $(GENERAL_FLAGS) -fno-exceptions
CC_FLAGS  = $(GENERAL_FLAGS)

# location of include files
INCLUDE_FILES = "-I$(ARDUINO_DIR)hardware/arduino/cores/arduino" "-I$(ARDUINO_DIR)hardware/arduino/variants/standard"

# library sources
LIBRARY_DIR = "$(ARDUINO_DIR)hardware/arduino/cores/arduino/"

build:

    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(MAIN_SKETCH) -o $(MAIN_SKETCH).o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)avr-libc/malloc.c -o malloc.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)avr-libc/realloc.c -o realloc.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)WInterrupts.c -o WInterrupts.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)wiring.c -o wiring.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)wiring_analog.c -o wiring_analog.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)wiring_digital.c -o wiring_digital.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)wiring_pulse.c -o wiring_pulse.c.o
    $(CC) $(CC_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)wiring_shift.c -o wiring_shift.c.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)CDC.cpp -o CDC.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)HardwareSerial.cpp -o HardwareSerial.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)HID.cpp -o HID.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)IPAddress.cpp -o IPAddress.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)main.cpp -o main.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)new.cpp -o new.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)Print.cpp -o Print.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)Stream.cpp -o Stream.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)Tone.cpp -o Tone.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)USBCore.cpp -o USBCore.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)WMath.cpp -o WMath.cpp.o
    $(CPP) $(CPP_FLAGS) $(INCLUDE_FILES) $(LIBRARY_DIR)WString.cpp -o WString.cpp.o
    rm core.a
    $(AR) rcs core.a malloc.c.o
    $(AR) rcs core.a realloc.c.o
    $(AR) rcs core.a WInterrupts.c.o
    $(AR) rcs core.a wiring.c.o
    $(AR) rcs core.a wiring_analog.c.o
    $(AR) rcs core.a wiring_digital.c.o
    $(AR) rcs core.a wiring_pulse.c.o
    $(AR) rcs core.a wiring_shift.c.o
    $(AR) rcs core.a CDC.cpp.o
    $(AR) rcs core.a HardwareSerial.cpp.o
    $(AR) rcs core.a HID.cpp.o
    $(AR) rcs core.a IPAddress.cpp.o
    $(AR) rcs core.a main.cpp.o
    $(AR) rcs core.a new.cpp.o
    $(AR) rcs core.a Print.cpp.o
    $(AR) rcs core.a Stream.cpp.o
    $(AR) rcs core.a Tone.cpp.o
    $(AR) rcs core.a USBCore.cpp.o
    $(AR) rcs core.a WMath.cpp.o
    $(AR) rcs core.a WString.cpp.o
    $(CC) -Os -Wl,--gc-sections -mmcu=$(MCU) -o $(MAIN_SKETCH).elf $(MAIN_SKETCH).o core.a -lm
    $(OBJ_COPY) -O ihex -j .eeprom --set-section-flags=.eeprom=alloc,load --no-change-warnings --change-section-lma .eeprom=0 $(MAIN_SKETCH).elf $(MAIN_SKETCH).eep
    $(OBJ_COPY) -O ihex -R .eeprom $(MAIN_SKETCH).elf $(MAIN_SKETCH).hex

You would need to change ARDUINO_DIR at least, to reflect where you installed the IDE. If you use other things like the Wire library you would need to expand it somewhat to compile additional libraries. Again, you can use what the IDE generates itself to guide your changes.

The lines with the leading spaces above would need the tab character instead of spaces, as is normal for a Makefile.